WorldWideScience

Sample records for cell model library

  1. Modeling the Non-Linear Behavior of Library Cells for an Accurate Static Noise Analysis

    CERN Document Server

    Forzan, Cristiano

    2011-01-01

    In signal integrity analysis, the joint effect of propagated noise through library cells, and of the noise injected on a quiet net by neighboring switching nets through coupling capacitances, must be considered in order to accurately estimate the overall noise impact on design functionality and performances. In this work the impact of the cell non-linearity on the noise glitch waveform is analyzed in detail, and a new macromodel that allows to accurately and efficiently modeling the non-linear effects of the victim driver in noise analysis is presented. Experimental results demonstrate the effectiveness of our method, and confirm that existing noise analysis approaches based on linear superposition of the propagated and crosstalk-injected noise can be highly inaccurate, thus impairing the sign-off functional verification phase.

  2. An open-source library for the numerical modeling of mass-transfer in solid oxide fuel cells

    Science.gov (United States)

    Novaresio, Valerio; García-Camprubí, María; Izquierdo, Salvador; Asinari, Pietro; Fueyo, Norberto

    2012-01-01

    The generation of direct current electricity using solid oxide fuel cells (SOFCs) involves several interplaying transport phenomena. Their simulation is crucial for the design and optimization of reliable and competitive equipment, and for the eventual market deployment of this technology. An open-source library for the computational modeling of mass-transport phenomena in SOFCs is presented in this article. It includes several multicomponent mass-transport models ( i.e. Fickian, Stefan-Maxwell and Dusty Gas Model), which can be applied both within porous media and in porosity-free domains, and several diffusivity models for gases. The library has been developed for its use with OpenFOAM ®, a widespread open-source code for fluid and continuum mechanics. The library can be used to model any fluid flow configuration involving multicomponent transport phenomena and it is validated in this paper against the analytical solution of one-dimensional test cases. In addition, it is applied for the simulation of a real SOFC and further validated using experimental data. Program summaryProgram title: multiSpeciesTransportModels Catalogue identifier: AEKB_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEKB_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: GNU General Public License No. of lines in distributed program, including test data, etc.: 18 140 No. of bytes in distributed program, including test data, etc.: 64 285 Distribution format: tar.gz Programming language:: C++ Computer: Any x86 (the instructions reported in the paper consider only the 64 bit case for the sake of simplicity) Operating system: Generic Linux (the instructions reported in the paper consider only the open-source Ubuntu distribution for the sake of simplicity) Classification: 12 External routines: OpenFOAM® (version 1.6-ext) ( http://www.extend-project.de) Nature of problem: This software provides a library of models for

  3. CellLab-CTS 2015: a Python library for continuous-time stochastic cellular automaton modeling using Landlab

    Science.gov (United States)

    Tucker, G. E.; Hobley, D. E. J.; Hutton, E.; Gasparini, N. M.; Istanbulluoglu, E.; Adams, J. M.; Nudurupati, S. S.

    2015-11-01

    CellLab-CTS 2015 is a Python-language software library for creating two-dimensional, continuous-time stochastic (CTS) cellular automaton models. The model domain consists of a set of grid nodes, with each node assigned an integer state-code that represents its condition or composition. Adjacent pairs of nodes may undergo transitions to different states, according to a user-defined average transition rate. A model is created by writing a Python code that defines the possible states, the transitions, and the rates of those transitions. The code instantiates, initializes, and runs one of four object classes that represent different types of CTS model. CellLab-CTS provides the option of using either square or hexagonal grid cells. The software provides the ability to treat particular grid-node states as moving particles, and to track their position over time. Grid nodes may also be assigned user-defined properties, which the user can update after each transition through the use of a callback function. As a component of the Landlab modeling framework, CellLab-CTS models take advantage of a suite of Landlab's tools and capabilities, such as support for standardized input and output.

  4. Library 2.0 A New Service Model For Libraries

    Directory of Open Access Journals (Sweden)

    Agnes Erich

    2007-01-01

    Full Text Available The utilization of the new information and communication technologies implies a series of changes concerning the libraries. Currently it is spoken more and more about a new type of service offered by them, Library 2.0, which brings in foreground the user who becomes a modeler of the library services and resources. The information structures customer is not satisfied anymore by the unidirectional access to the resources, he wanted to be involved in the evaluation of them, making comments and sharing his ideas with another user. In this sense the library managers are looking for more efficient means to deliver services so that to obtain a proper feedback which enable them to take the best measures to make profitable them. Library 2.0 can be a solution for all these problems.

  5. Best Small Library in American 2008: Chelsea District Library--A Michigan Model

    Science.gov (United States)

    Berry, John N., III

    2008-01-01

    This article features Chelsea District Library (CDL), Michigan, which claims recognition as the 2008 Best Small Library in America, an award sponsored by "Library Journal" and the Bill & Melinda Gates Foundation. The aggressively responsive staff of CDL has created a model for small libraries all over America. There, careful…

  6. No Phone Zone: Controlling Cell Phone Use in Academic Libraries

    Science.gov (United States)

    Heaton, Shelley; Master, Nancy

    2006-01-01

    This article reports the results of a survey of cell phone policies in university libraries conducted over a three-month period in 2005. The authors sought information about the libraries' problems regarding cell phone use and attendant noise by students and other library users. The authors began with an 18-question survey of one hundred…

  7. Arrangement of library materials models in Slovene public libraries

    Directory of Open Access Journals (Sweden)

    Marija Kobal

    2009-01-01

    Full Text Available The classification and the alignment of library material represent an important part of the library science from its early beginnings onwards. The introduction of UDC into Slovene public libraries coincided with the alteration of the open access library collection.In Slovenia the public libraries in average take into account the references and recommendations for the arrangement of the free access library collection, considering the age groups of the users, adults and juniors. The next division is connected with the functional type of the material, which is divided into fiction, and scientific material,and then there is the UDC label for the arrangement of the material on the shelves or word systematic in one of the public libraries. In the junior department there is a need for a further division into four age/reading groups of books instead of three.Within the formed groups there is the further arrangement of books in an alphabetical order by means of author or subject headings. The public library is a unit, which services all the residents in its local area. The different needs and interests of users should take into account in the formation of a library material arrangement.

  8. Indian Consortia Models: FORSA Libraries' Experiences

    Science.gov (United States)

    Patil, Y. M.; Birdie, C.; Bawdekar, N.; Barve, S.; Anilkumar, N.

    2007-10-01

    With increases in prices of journals, shrinking library budgets and cuts in subscriptions to journals over the years, there has been a big challenge facing Indian library professionals to cope with the proliferation of electronic information resources. There have been sporadic efforts by different groups of libraries in forming consortia at different levels. The types of consortia identified are generally based on various models evolved in India in a variety of forms depending upon the participants' affiliations and funding sources. Indian astronomy library professionals have formed a group called Forum for Resource Sharing in Astronomy and Astrophysics (FORSA), which falls under `Open Consortia', wherein participants are affiliated to different government departments. This is a model where professionals willingly come forward and actively support consortia formation; thereby everyone benefits. As such, FORSA has realized four consortia, viz. Nature Online Consortium; Indian Astrophysics Consortium for physics/astronomy journals of Springer/Kluwer; Consortium for Scientific American Online Archive (EBSCO); and Open Consortium for Lecture Notes in Physics (Springer), which are discussed briefly.

  9. A Comprehensive TALEN-Based Knockout Library for Generating Human Induced Pluripotent Stem Cell-Based Models for Cardiovascular Diseases.

    Science.gov (United States)

    Karakikes, Ioannis; Termglinchan, Vittavat; Cepeda, Diana A; Lee, Jaecheol; Diecke, Sebastian; Hendel, Ayal; Itzhaki, Ilanit; Ameen, Mohamed; Shrestha, Rajani; Wu, Haodi; Ma, Ning; Shao, Ning-Yi; Seeger, Timon; Woo, Nicole A; Wilson, Kitchener D; Matsa, Elena; Porteus, Matthew H; Sebastiano, Vittorio; Wu, Joseph C

    2017-02-28

    Rationale: Targeted genetic engineering using programmable nucleases such as transcription activator-like effector nucleases (TALENs) is a valuable tool for precise, site-specific genetic modification in the human genome. Objective: The emergence of novel technologies such as human induced pluripotent stem cells (iPSCs) and nuclease-mediated genome editing represent a unique opportunity for studying cardiovascular diseases in vitro. Methods and Results: By incorporating extensive literature and database searches, we designed a collection of TALEN constructs to knockout (KO) eighty-eight human genes that are associated with cardiomyopathies and congenital heart diseases. The TALEN pairs were designed to induce double-strand DNA break near the starting codon of each gene that either disrupted the start codon or introduced a frameshift mutation in the early coding region, ensuring faithful gene KO. We observed that all the constructs were active and disrupted the target locus at high frequencies. To illustrate the general utility of the TALEN-mediated KO technique, six individual genes (TNNT2, LMNA/C, TBX5, MYH7, ANKRD1, and NKX2.5) were knocked out with high efficiency and specificity in human iPSCs. By selectively targeting a dilated cardiomyopathy (DCM)-causing mutation (TNNT2 p.R173W) in patient-specific iPSC-derived cardiac myocytes (iPSC-CMs), we demonstrated that the KO strategy ameliorates the DCM phenotype in vitro. In addition, we modeled the Holt-Oram syndrome (HOS) in iPSC-CMs in vitro and uncovered novel pathways regulated by TBX5 in human cardiac myocyte development. Conclusions: Collectively, our study illustrates the powerful combination of iPSCs and genome editing technology for understanding the biological function of genes and the pathological significance of genetic variants in human cardiovascular diseases. The methods, strategies, constructs and iPSC lines developed in this study provide a validated, readily available resource for cardiovascular

  10. Outline and Preliminary Evaluation of the Classical Digital Library Model.

    Science.gov (United States)

    MacCall, Steven L.; Cleveland, Ana D.; Gibson, Ian E.

    1999-01-01

    Outlines the classical digital library model, which is derived from traditional practices of library and information science professionals, as an alternative to the database retrieval model. Reports preliminary results from an evaluation study of library and information professionals and endusers involved with primary care medicine. (AEF)

  11. Where's the Library in Service Learning?: Models for Engaged Library Instruction.

    Science.gov (United States)

    Riddle, John S.

    2003-01-01

    Discusses service learning and presents models of instruction that academic libraries might offer to service learning pedagogy. Highlights include the role of information literacy; reflection; affective and cognitive learning outcomes of service learning; impact of service learning on libraries; learning process model; course objectives model;…

  12. Analysis of boundary point (break point) in Linear Delay Model for nanoscale VLSI standard cell library characterization at PVT corners

    CERN Document Server

    Agarwal, Gaurav Kumar

    2014-01-01

    In VLSI chip design flow, Static Timing Analysis (STA) is used for fast and accurate analysis of data-path delay. This process is fast because delay is picked from Look Up Tables (LUT) rather than conventional SPICE simulations. But accuracy of this method depends upon the underlying delay model with which LUT was characterized. Non Linear Delay Model (NLDM) based LUTs are quite common in industries. These LUT requires huge amount to time during characterization because of huge number of SPICE simulations done at arbitrary points. To improve this people proposed various other delay models like alpha-power and piecewise linear delay models. Bulusu et al proposed Linear Delay Model(LDM) which reduces LUT generation time to 50 percent. LDM divides delay curve w.r.t input rise time(trin) into two different region one is linear and other is non-linear. This boundary point between linear and non- linear region was called break point (trb). Linear region will be done if we simulate at only two points. This advantage...

  13. A Components Library System Model and the Support Tool

    Institute of Scientific and Technical Information of China (English)

    MIAO Huai-kou; LIU Hui; LIU Jing; LI Xiao-bo

    2004-01-01

    Component-based development needs a well-designed components library and a set of support tools.This paper presents the design and implementation of a components library system model and its support tool UMLCASE.A set of practical CASE tools is constructed.UMLCASE can use UML to design Use Case Diagram, Class Diagram etc.And it integrates with components library system.

  14. Modeling and Implementing ISO 13584-based Part Library

    Institute of Scientific and Technical Information of China (English)

    杨东; 肖丽雯; 何援军; 张申生

    2004-01-01

    ISO 13584 (I.e. PLIB) is an international standard for the representation and exchange of CAD part libraries. It aims to provide an application-independent mechanism to enable the share of part library information between applications. In this paper, the approach of modeling part library conforming to ISO 13584 is presented. Also, a prototype of part library management system, I.e. BYL-PLIB, whose implementation is in agreement with ISO 13854 is developed to demonstrate the usefulness of proposed approach.

  15. Using the Gamma-Poisson Model to Predict Library Circulations.

    Science.gov (United States)

    Burrell, Quentin L.

    1990-01-01

    Argues that the gamma mixture of Poisson processes, for all its perceived defects, can be used to make predictions regarding future library book circulations of a quality adequate for general management requirements. The use of the model is extensively illustrated with data from two academic libraries. (Nine references) (CLB)

  16. Designing Public Library Websites for Teens: A Conceptual Model

    Science.gov (United States)

    Naughton, Robin Amanda

    2012-01-01

    The main goal of this research study was to develop a conceptual model for the design of public library websites for teens (TLWs) that would enable designers and librarians to create library websites that better suit teens' information needs and practices. It bridges a gap in the research literature between user interface design in…

  17. Designing Public Library Websites for Teens: A Conceptual Model

    Science.gov (United States)

    Naughton, Robin Amanda

    2012-01-01

    The main goal of this research study was to develop a conceptual model for the design of public library websites for teens (TLWs) that would enable designers and librarians to create library websites that better suit teens' information needs and practices. It bridges a gap in the research literature between user interface design in human-computer…

  18. Cloud Computing Platform for an Online Model Library System

    Directory of Open Access Journals (Sweden)

    Mingang Chen

    2013-01-01

    Full Text Available The rapid developing of digital content industry calls for online model libraries. For the efficiency, user experience, and reliability merits of the model library, this paper designs a Web 3D model library system based on a cloud computing platform. Taking into account complex models, which cause difficulties in real-time 3D interaction, we adopt the model simplification and size adaptive adjustment methods to make the system with more efficient interaction. Meanwhile, a cloud-based architecture is developed to ensure the reliability and scalability of the system. The 3D model library system is intended to be accessible by online users with good interactive experiences. The feasibility of the solution has been tested by experiments.

  19. Preparation of cDNA libraries from vascular cells.

    Science.gov (United States)

    Lieb, M E; Taubman, M B

    1999-01-01

    The vast majority of past and present efforts in the molecular cloning of expressed sequences involve isolation of clones from cDNA libraries constructed in bacteriophage lambda (1,2). As discussed in Chapter 6 , screening these cDNA libraries using labeled probes remains the most straightforward method to isolate full length cDNAs for which some partial sequence information is known. Although the availability of high quality reagents and kits over the past decade has made the process of library construction increasingly straightforward, generation of high-quality libraries is a task that still requires a fair amount of dedicated effort. Because alternative PCR-based cloning strategies have become increasingly popular alternatives to cDNA library screening, it is useful to consider the advantages and disadvantages of each strategy before embarking on a project to construct a cDNA library (Table 1). In our opinion, it is worthwhile to construct a cDNA library when the transcript of interest is not exceedingly rare (i.e., can readily be detected by Northern blot analysis of total RNA), when multiple cDNAs will need to be cloned over a period of time, and in situations where occasional mutations can not be tolerated (for example, if the cDNA is to be expressed in mammalian cells to examine function). In situations where the transcript of interest is expressed at exceedingly low levels, or when only a single cDNA needs to be cloned, a PCR-based strategy should be considered. When the tissue source is precious (such as a unique clinical specimen), successful construction of a phage library provides a resource that can be amplified and used for multiple cloning projects over many years, but runs the risk of consuming the available RNA if the library construction fails. Table 1 Comparison of Relative Advantages of cDNA Cloning from Lambda Phage Libraries by Plaque Hybridization Compared to Newer PCR- Based Strategies Lambda phage cDNA library PCR-based strategy Freedom

  20. Designing Multi-target Compound Libraries with Gaussian Process Models.

    Science.gov (United States)

    Bieler, Michael; Reutlinger, Michael; Rodrigues, Tiago; Schneider, Petra; Kriegl, Jan M; Schneider, Gisbert

    2016-05-01

    We present the application of machine learning models to selecting G protein-coupled receptor (GPCR)-focused compound libraries. The library design process was realized by ant colony optimization. A proprietary Boehringer-Ingelheim reference set consisting of 3519 compounds tested in dose-response assays at 11 GPCR targets served as training data for machine learning and activity prediction. We compared the usability of the proprietary data with a public data set from ChEMBL. Gaussian process models were trained to prioritize compounds from a virtual combinatorial library. We obtained meaningful models for three of the targets (5-HT2c , MCH, A1), which were experimentally confirmed for 12 of 15 selected and synthesized or purchased compounds. Overall, the models trained on the public data predicted the observed assay results more accurately. The results of this study motivate the use of Gaussian process regression on public data for virtual screening and target-focused compound library design.

  1. US Academic Libraries: Today's Learning Commons Model

    Science.gov (United States)

    McMullen, Susan

    2008-01-01

    In 2007, the author examined existing academic libraries in the United States to determine best practices for the design, implementation and service of learning commons facilities. A primary objective of this study was to discover how to create a higher education learning environment that sustains scholarship, encourages collaboration and empowers…

  2. A Comprehensive, Ethnically Diverse Library of Sickle Cell Disease-Specific Induced Pluripotent Stem Cells.

    Science.gov (United States)

    Park, Seonmi; Gianotti-Sommer, Andreia; Molina-Estevez, Francisco Javier; Vanuytsel, Kim; Skvir, Nick; Leung, Amy; Rozelle, Sarah S; Shaikho, Elmutaz Mohammed; Weir, Isabelle; Jiang, Zhihua; Luo, Hong-Yuan; Chui, David H K; Figueiredo, Maria Stella; Alsultan, Abdulraham; Al-Ali, Amein; Sebastiani, Paola; Steinberg, Martin H; Mostoslavsky, Gustavo; Murphy, George J

    2017-04-11

    Sickle cell anemia affects millions of people worldwide and is an emerging global health burden. As part of a large NIH-funded NextGen Consortium, we generated a diverse, comprehensive, and fully characterized library of sickle-cell-disease-specific induced pluripotent stem cells (iPSCs) from patients of different ethnicities, β-globin gene (HBB) haplotypes, and fetal hemoglobin (HbF) levels. iPSCs stand to revolutionize the way we study human development, model disease, and perhaps eventually, treat patients. Here, we describe this unique resource for the study of sickle cell disease, including novel haplotype-specific polymorphisms that affect disease severity, as well as for the development of patient-specific therapeutics for this phenotypically diverse disorder. As a complement to this library, and as proof of principle for future cell- and gene-based therapies, we also designed and employed CRISPR/Cas gene editing tools to correct the sickle hemoglobin (HbS) mutation.

  3. A Comprehensive, Ethnically Diverse Library of Sickle Cell Disease-Specific Induced Pluripotent Stem Cells

    Directory of Open Access Journals (Sweden)

    Seonmi Park

    2017-04-01

    Full Text Available Sickle cell anemia affects millions of people worldwide and is an emerging global health burden. As part of a large NIH-funded NextGen Consortium, we generated a diverse, comprehensive, and fully characterized library of sickle-cell-disease-specific induced pluripotent stem cells (iPSCs from patients of different ethnicities, β-globin gene (HBB haplotypes, and fetal hemoglobin (HbF levels. iPSCs stand to revolutionize the way we study human development, model disease, and perhaps eventually, treat patients. Here, we describe this unique resource for the study of sickle cell disease, including novel haplotype-specific polymorphisms that affect disease severity, as well as for the development of patient-specific therapeutics for this phenotypically diverse disorder. As a complement to this library, and as proof of principle for future cell- and gene-based therapies, we also designed and employed CRISPR/Cas gene editing tools to correct the sickle hemoglobin (HbS mutation.

  4. Multiscale Computing with the Multiscale Modeling Library and Runtime Environment

    NARCIS (Netherlands)

    Borgdorff, J.; Mamonski, M.; Bosak, B.; Groen, D.; Ben Belgacem, M.; Kurowski, K.; Hoekstra, A.G.

    2013-01-01

    We introduce a software tool to simulate multiscale models: the Multiscale Coupling Library and Environment 2 (MUSCLE 2). MUSCLE 2 is a component-based modeling tool inspired by the multiscale modeling and simulation framework, with an easy-to-use API which supports Java, C++, C, and Fortran. We pre

  5. Distraction and inattention in the driver model library

    NARCIS (Netherlands)

    Hogema, J.H.; Martens, M.H.; Ubink, E.M.

    2011-01-01

    TNO is developing a Driver Model Library (DML) to provide computational models of driver behaviour and decision making for use as a cross-platform plug-in for traffic simulations. The DML is based on a multi-agent cognitive framework which models the individual driving tasks (such as navigation, ove

  6. Modeling a National Collaborative Digital Library for Malaysian Secondary Schools

    Directory of Open Access Journals (Sweden)

    N.N. Edzan

    2004-09-01

    Full Text Available This paper describes the conceptualisation of a model for a collaborative digital library specially tailored for Malaysian secondary schools, which will support classroom teaching and learning. The move towards collaboratively building the contents of a digital library is a fairly recent trend and it simulates an environment where partners are empowered to participate in building and up keeping the knowledge contents of the system. The conceptualisation of a Malaysian digital library is in line with the governments efforts in establishing SMART schools. However, various issues such as identifying local resources, ascertaining the needs of it users, and establishing a framework to meet these needs, must be addressed before the digital library can be fully implemented. It may be approached through the establishment of test beds in a particular learning institution, before nationwide implementation.

  7. Using 4P Marketing Model in Academic Libraries: An Experience

    Directory of Open Access Journals (Sweden)

    Mehdi Alipour Hafezi

    2013-06-01

    Full Text Available The present study mainly aims to demonstrate the weaknesses and strengths of using marketing principles in academic libraries and finally presenting some important suggestions in order to improve their marketing. This study proceeds through expressing the current marketing situation of studied academic libraries from the view point of 4P model. In this regard, the current situation is analyzed using a researcher-made questionnaire, and then the problems and shortcomings are highlighted in the field of marketing in the view point of 4P model which in turn enables us to introduce suggestions to overcome them. This research indicates that marketing principles in the studied libraries are not in a good state. The situation of product dimension is a bit farther up middle state (3.23. Also, the Place dimension with total average of 2.97, Promotion dimension with total average of 2.63 and finally the Price dimension with total average of 1.59 are below the middle state. Therefore, trying to make a good plan in marketing in the four mentioned dimensions is essential for studied academic libraries. Improving academic libraries' statement needs identifying their current situation in the view point of marketing. Consequently, this research studied the current situation of Isfahan governmental academic libraries in order to identify their weaknesses and suggest sufficient suggestions to cover them.

  8. Damsel: A Data Model Storage Library for Exascale Science

    Energy Technology Data Exchange (ETDEWEB)

    Koziol, Quincey [The HDF Group

    2014-11-26

    The goal of this project is to enable exascale computational science applications to interact conveniently and efficiently with storage through abstractions that match their data models. We will accomplish this through three major activities: (1) identifying major data model motifs in computational science applications and developing representative benchmarks; (2) developing a data model storage library, called Damsel, that supports these motifs, provides efficient storage data layouts, incorporates optimizations to enable exascale operation, and is tolerant to failures; and (3) productizing Damsel and working with computational scientists to encourage adoption of this library by the scientific community.

  9. Damsel - A Data Model Storage Library for Exascale Science

    Energy Technology Data Exchange (ETDEWEB)

    Samatova, Nagiza F

    2014-07-18

    The goal of this project is to enable exascale computational science applications to interact conveniently and efficiently with storage through abstractions that match their data models. We will accomplish this through three major activities: (1) identifying major data model motifs in computational science applications and developing representative benchmarks; (2) developing a data model storage library, called Damsel, that supports these motifs, provides efficient storage data layouts, incorporates optimizations to enable exascale operation, and is tolerant to failures; and (3) productizing Damsel and working with computational scientists to encourage adoption of this library by the scientific community.

  10. Damsel: A Data Model Storage Library for Exascale Science

    Energy Technology Data Exchange (ETDEWEB)

    Choudhary, Alok [Northwestern Univ., Evanston, IL (United States); Liao, Wei-keng [Northwestern Univ., Evanston, IL (United States)

    2014-07-11

    Computational science applications have been described as having one of seven motifs (the “seven dwarfs”), each having a particular pattern of computation and communication. From a storage and I/O perspective, these applications can also be grouped into a number of data model motifs describing the way data is organized and accessed during simulation, analysis, and visualization. Major storage data models developed in the 1990s, such as Network Common Data Format (netCDF) and Hierarchical Data Format (HDF) projects, created support for more complex data models. Development of both netCDF and HDF5 was influenced by multi-dimensional dataset storage requirements, but their access models and formats were designed with sequential storage in mind (e.g., a POSIX I/O model). Although these and other high-level I/O libraries have had a beneficial impact on large parallel applications, they do not always attain a high percentage of peak I/O performance due to fundamental design limitations, and they do not address the full range of current and future computational science data models. The goal of this project is to enable exascale computational science applications to interact conveniently and efficiently with storage through abstractions that match their data models. The project consists of three major activities: (1) identifying major data model motifs in computational science applications and developing representative benchmarks; (2) developing a data model storage library, called Damsel, that supports these motifs, provides efficient storage data layouts, incorporates optimizations to enable exascale operation, and is tolerant to failures; and (3) productizing Damsel and working with computational scientists to encourage adoption of this library by the scientific community. The product of this project, Damsel library, is openly available for download from http://cucis.ece.northwestern.edu/projects/DAMSEL. Several case studies and application programming interface

  11. Object-oriented Modular Model Library for Distillation

    Institute of Scientific and Technical Information of China (English)

    CHEN Chang; DING Jianwan; CHEN Liping

    2013-01-01

    For modeling and simulation of distillation process,there are lots of special purpose simulators along with their model libraries,such as Aspen Plus and HYSYS.However,the models in these tools lack of flexibility and are not open to the end-user.Models developed in one tool can not be conveniently used in others because of the barriers among these simulators.In order to solve those problems,a flexible and extensible distillation system model library is constructed in this study,based on the Modelica and Modelica-supported platform MWorks,by the object-oriented technology and level progressive modeling strategy.It supports the reuse of knowledge on different granularities:physical phenomenon,unit model and system model.It is also an interface-friendly,accurate,fast PC-based and easily reusable simulation tool,which enables end-user to customize and extend the framework to add new functionality or adapt the simulation behavior as required.It also allows new models to be composed programmatically or graphically to form more complex models by invoking the existing components.A conventional air distillation column model is built and calculated using the library,and the results agree well with that simulated in Aspen Plus.

  12. Implementing Kuhlthau: A New Model for Library and Reference Instruction.

    Science.gov (United States)

    Isbell, Dennis; Kammerlocher, Lisa

    1998-01-01

    Summarizes Carol Kuhlthau's research on the information search process. Discusses how Kuhlthau's model of students' information search process (ISP) has been integrated into a course at Arizona State University and is being used experimentally as a training tool in the library's reference services. Selected student responses to research process…

  13. The Managerial Roles of Academic Library Directors: The Mintzberg Model.

    Science.gov (United States)

    Moskowitz, Michael Ann

    1986-01-01

    A study based on a model developed by Henry Mintzberg examined the internal and external managerial roles of 126 New England college and university library directors. Survey results indicate that the 97 responding directors were primarily involved with internal managerial roles and work contacts. (CDD)

  14. Sustaining librarian vitality: embedded librarianship model for health sciences libraries.

    Science.gov (United States)

    Wu, Lin; Mi, Misa

    2013-01-01

    With biomedical information widely accessible from anywhere at any time, health sciences libraries have become less centralized, and they are challenged to stay relevant and vital to the mission and strategic goals of their home institution. One solution is to embed librarians at strategic points in health professions' education, research, and patient care. This article discusses a proposed five-level model of embedded librarianship within the context of health sciences libraries and describes different roles, knowledge, and skills desirable for health sciences librarians working as embedded librarians.

  15. Mouse protein arrays from a TH1 cell cDNA library for antibody screening and serum profiling

    OpenAIRE

    2005-01-01

    The mouse is the premier genetic model organism for the study of disease and development. We describe the establishment of a mouse T helper cell type 1 (TH1) protein expression library that provides direct access to thousands of recombinant mouse proteins, in particular those associated with immune responses. The advantage of a system based on the combination of large cDNA expression libraries with microarray technology is the direct connection of the DNA sequence information from a particula...

  16. Voro++: a three-dimensional Voronoi cell library in C++

    Energy Technology Data Exchange (ETDEWEB)

    Rycroft, Chris

    2009-01-15

    Voro++ is a free software library for the computation of three dimensional Voronoi cells. It is primarily designed for applications in physics and materials science, where the Voronoi tessellation can be a useful tool in the analysis of densely-packed particle systems, such as granular materials or glasses. The software comprises of several C++ classes that can be modified and incorporated into other programs. A command-line utility is also provided that can use most features of the code. Voro++ makes use of a direct cell-by-cell construction, which is particularly suited to handling special boundary conditions and walls. It employs algorithms which are tolerant for numerical precision errors, and it has been successfully employed on very large particle systems.

  17. On Model Libraries for Thermo-hydraulic Applications

    OpenAIRE

    Eborn, Jonas

    2001-01-01

    Mathematical modelling and simulation are important tools when dealing with engineering systems that today are becoming increasingly more complex. Tightly integrated production and process optimization are trends that give rise to heterogeneous systems, which are difficult to handle without expertise in several engineering disciplines. Model libraries provide an excellent way to package engineering knowledge of systems and units to be reused by non experts. Many commercial simulation packages...

  18. Biomass Scenario Model Scenario Library: Definitions, Construction, and Description

    Energy Technology Data Exchange (ETDEWEB)

    Inman, D.; Vimmerstedt, L.; Bush, B.; Peterson, S.

    2014-04-01

    Understanding the development of the biofuels industry in the United States is important to policymakers and industry. The Biomass Scenario Model (BSM) is a system dynamics model of the biomass-to-biofuels system that can be used to explore policy effects on biofuels development. Because of the complexity of the model, as well as the wide range of possible future conditions that affect biofuels industry development, we have not developed a single reference case but instead developed a set of specific scenarios that provide various contexts for our analyses. The purpose of this report is to describe the scenarios that comprise the BSM scenario library. At present, we have the following policy-focused scenarios in our library: minimal policies, ethanol-focused policies, equal access to policies, output-focused policies, technological diversity focused, and the point-of-production- focused. This report describes each scenario, its policy settings, and general insights gained through use of the scenarios in analytic studies.

  19. Jeddah Historical Building Information Modelling "JHBIM" - Object Library

    Science.gov (United States)

    Baik, A.; Alitany, A.; Boehm, J.; Robson, S.

    2014-05-01

    The theory of using Building Information Modelling "BIM" has been used in several Heritage places in the worldwide, in the case of conserving, documenting, managing, and creating full engineering drawings and information. However, one of the most serious issues that facing many experts in order to use the Historical Building Information Modelling "HBIM", is creating the complicated architectural elements of these Historical buildings. In fact, many of these outstanding architectural elements have been designed and created in the site to fit the exact location. Similarly, this issue has been faced the experts in Old Jeddah in order to use the BIM method for Old Jeddah historical Building. Moreover, The Saudi Arabian City has a long history as it contains large number of historic houses and buildings that were built since the 16th century. Furthermore, the BIM model of the historical building in Old Jeddah always take a lot of time, due to the unique of Hijazi architectural elements and no such elements library, which have been took a lot of time to be modelled. This paper will focus on building the Hijazi architectural elements library based on laser scanner and image survey data. This solution will reduce the time to complete the HBIM model and offering in depth and rich digital architectural elements library to be used in any heritage projects in Al-Balad district, Jeddah City.

  20. Stochastic hyperfine interactions modeling library-Version 2

    Science.gov (United States)

    Zacate, Matthew O.; Evenson, William E.

    2016-02-01

    The stochastic hyperfine interactions modeling library (SHIML) provides a set of routines to assist in the development and application of stochastic models of hyperfine interactions. The library provides routines written in the C programming language that (1) read a text description of a model for fluctuating hyperfine fields, (2) set up the Blume matrix, upon which the evolution operator of the system depends, and (3) find the eigenvalues and eigenvectors of the Blume matrix so that theoretical spectra of experimental techniques that measure hyperfine interactions can be calculated. The optimized vector and matrix operations of the BLAS and LAPACK libraries are utilized. The original version of SHIML constructed and solved Blume matrices for methods that measure hyperfine interactions of nuclear probes in a single spin state. Version 2 provides additional support for methods that measure interactions on two different spin states such as Mössbauer spectroscopy and nuclear resonant scattering of synchrotron radiation. Example codes are provided to illustrate the use of SHIML to (1) generate perturbed angular correlation spectra for the special case of polycrystalline samples when anisotropy terms of higher order than A22 can be neglected and (2) generate Mössbauer spectra for polycrystalline samples for pure dipole or pure quadrupole transitions.

  1. Hyperopt: a Python library for model selection and hyperparameter optimization

    Science.gov (United States)

    Bergstra, James; Komer, Brent; Eliasmith, Chris; Yamins, Dan; Cox, David D.

    2015-01-01

    Sequential model-based optimization (also known as Bayesian optimization) is one of the most efficient methods (per function evaluation) of function minimization. This efficiency makes it appropriate for optimizing the hyperparameters of machine learning algorithms that are slow to train. The Hyperopt library provides algorithms and parallelization infrastructure for performing hyperparameter optimization (model selection) in Python. This paper presents an introductory tutorial on the usage of the Hyperopt library, including the description of search spaces, minimization (in serial and parallel), and the analysis of the results collected in the course of minimization. This paper also gives an overview of Hyperopt-Sklearn, a software project that provides automatic algorithm configuration of the Scikit-learn machine learning library. Following Auto-Weka, we take the view that the choice of classifier and even the choice of preprocessing module can be taken together to represent a single large hyperparameter optimization problem. We use Hyperopt to define a search space that encompasses many standard components (e.g. SVM, RF, KNN, PCA, TFIDF) and common patterns of composing them together. We demonstrate, using search algorithms in Hyperopt and standard benchmarking data sets (MNIST, 20-newsgroups, convex shapes), that searching this space is practical and effective. In particular, we improve on best-known scores for the model space for both MNIST and convex shapes. The paper closes with some discussion of ongoing and future work.

  2. PNet: A Python Library for Petri Net Modeling and Simulation

    Directory of Open Access Journals (Sweden)

    Zhu En Chay

    2016-07-01

    Full Text Available Petri Net is a formalism to describe changes between 2 or more states across discrete time and has been used to model many systems. We present PNet – a pure Python library for Petri Net modeling and simulation in Python programming language. The design of PNet focuses on reducing the learning curve needed to define a Petri Net by using a text-based language rather than programming constructs to define transition rules. Complex transition rules can be refined as regular Python functions. To demonstrate the simplicity of PNet, we present 2 examples – bread baking, and epidemiological models.

  3. CMOS Low Power Cell Library for Digital Design

    Directory of Open Access Journals (Sweden)

    Kanika Kaur

    2013-06-01

    Full Text Available Historically, VLSI designers have focused on increasing the speed and reducing the area of digital systems. However, the evolution of portable systems and advanced Deep Sub-Micron fabrication technologies have brought power dissipation as another critical design factor. Low power design reduces cooling cost and increases reliability especially for high density systems. Moreover, it reduces the weight and size of portable devices. The power dissipation in CMOS circuits consists of static and dynamic components. Since dynamic power is proportional to V2 dd and static power is proportional to Vdd, lowering the supply voltage and device dimensions, the transistor threshold voltage also has to be scaled down to achieve the required performance. In case of static power, the power is consumed during the steady state condition i.e when there are no input/output transitions. Static power has two sources: DC power and Leakage power. Consecutively to facilitate voltage scaling without disturbing the performance, threshold voltage has to be minimized. Furthermore it leads to better noise margins and helps to avoid the hot carrier effects in short channel devices. In this paper we have been proposed the new CMOS library for the complex digital design using scaling the supply voltage and device dimensions and also suggest the methods to control the leakage current to obtain the minimum power dissipation at optimum value of supply voltage and transistor threshold. In this paper CMOS Cell library has been implemented using TSMC (0.18um and TSMC (90nm technology using HEP2 tool of IC designing from Mentor Graphics for various analysis and simulations.

  4. AST: A library for modelling and manipulating coordinate systems

    CERN Document Server

    Berry, David; Jenness, Tim

    2016-01-01

    In view of increased interest in object-oriented systems for describing coordinate information, we present a description of the data model used by the Starlink AST library. AST provides a comprehensive range of facilities for attaching world co-ordinate systems to astronomical data, and for retrieving and interpreting that information in a variety of formats, including FITS-WCS. AST is a mature system that has been in use for more than 17 years, and may consequently be useful as a means of informing development of similar systems in the future.

  5. A Web-Based Electronic Book (e-book) Library: The netLibrary Model.

    Science.gov (United States)

    Connaway, Lynn Silipigni

    2001-01-01

    Identifies elements that are important for academic libraries to use in evaluating electronic books, including content; acquisition and collection development; software and hardware standards and protocols; digital rights management; access; archiving; privacy; the market and pricing; and enhancements and ideal features. Describes netLibrary, a…

  6. A computational library for multiscale modeling of material failure

    Science.gov (United States)

    Talebi, Hossein; Silani, Mohammad; Bordas, Stéphane P. A.; Kerfriden, Pierre; Rabczuk, Timon

    2014-05-01

    We present an open-source software framework called PERMIX for multiscale modeling and simulation of fracture in solids. The framework is an object oriented open-source effort written primarily in Fortran 2003 standard with Fortran/C++ interfaces to a number of other libraries such as LAMMPS, ABAQUS, LS-DYNA and GMSH. Fracture on the continuum level is modeled by the extended finite element method (XFEM). Using several novel or state of the art methods, the piece software handles semi-concurrent multiscale methods as well as concurrent multiscale methods for fracture, coupling two continuum domains or atomistic domains to continuum domains, respectively. The efficiency of our open-source software is shown through several simulations including a 3D crack modeling in clay nanocomposites, a semi-concurrent FE-FE coupling, a 3D Arlequin multiscale example and an MD-XFEM coupling for dynamic crack propagation.

  7. A new adaptive data transfer library for model coupling

    Science.gov (United States)

    Zhang, Cheng; Liu, Li; Yang, Guangwen; Li, Ruizhe; Wang, Bin

    2016-06-01

    Data transfer means transferring data fields from a sender to a receiver. It is a fundamental and frequently used operation of a coupler. Most versions of state-of-the-art couplers currently use an implementation based on the point-to-point (P2P) communication of the message passing interface (MPI) (referred to as "P2P implementation" hereafter). In this paper, we reveal the drawbacks of the P2P implementation when the parallel decompositions of the sender and the receiver are different, including low communication bandwidth due to small message size, variable and high number of MPI messages, as well as network contention. To overcome these drawbacks, we propose a butterfly implementation for data transfer. Although the butterfly implementation outperforms the P2P implementation in many cases, it degrades the performance when the sender and the receiver have similar parallel decompositions or when the number of processes used for running models is small. To ensure data transfer with optimal performance, we design and implement an adaptive data transfer library that combines the advantages of both butterfly implementation and P2P implementation. As the adaptive data transfer library automatically uses the best implementation for data transfer, it outperforms the P2P implementation in many cases while it does not decrease the performance in any cases. Now, the adaptive data transfer library is open to the public and has been imported into the C-Coupler1 coupler for performance improvement of data transfer. We believe that other couplers can also benefit from this.

  8. E-Books and New Library Service Models: An Analysis of the Impact of E-Book Technology on Academic Libraries.

    Science.gov (United States)

    Jantz, Ronald

    2001-01-01

    Analyzes the implications of electronic book technology (e-books) on academic libraries. Discusses new business models for publishers, including self-publishing, Internet publishing, and partnerships with libraries as publishers; impact on library services, including cataloging, circulation, and digital preservation; user benefits; standards;…

  9. Rock.XML - Towards a library of rock physics models

    Science.gov (United States)

    Jensen, Erling Hugo; Hauge, Ragnar; Ulvmoen, Marit; Johansen, Tor Arne; Drottning, Åsmund

    2016-08-01

    Rock physics modelling provides tools for correlating physical properties of rocks and their constituents to the geophysical observations we measure on a larger scale. Many different theoretical and empirical models exist, to cover the range of different types of rocks. However, upon reviewing these, we see that they are all built around a few main concepts. Based on this observation, we propose a format for digitally storing the specifications for rock physics models which we have named Rock.XML. It does not only contain data about the various constituents, but also the theories and how they are used to combine these building blocks to make a representative model for a particular rock. The format is based on the Extensible Markup Language XML, making it flexible enough to handle complex models as well as scalable towards extending it with new theories and models. This technology has great advantages as far as documenting and exchanging models in an unambiguous way between people and between software. Rock.XML can become a platform for creating a library of rock physics models; making them more accessible to everyone.

  10. SRADLIB: A C Library for Solar Radiation Modelling

    Energy Technology Data Exchange (ETDEWEB)

    Balenzategui, J. L. [Ciemat. Madrid (Spain)

    2000-07-01

    This document shows the result of an exhaustive study about the theoretical and numerical models available in the literature about solar radiation modelling. The purpose of this study is to develop or adapt mathematical models describing the solar radiation specifically for Spain locations as well as to create computer tools able to support the labour of researchers or engineers needing solar radiation data to solve or improve the technical or energetic performance of solar systems. As results of this study and revision, a C library (SRADLIB) is presented as a key for the compilation of the mathematical models from different authors, for the comparison among the different approaches and for its application in computer programs. Different topics related to solar radiation and its modelling are first discussed, including the assumptions and conventions adopted and describing the most accepted and used current state-of-the-art models. some typical problems in the numerical calculation of radiation values are also posed with the proposed solution. The document includes next a complete reference of the developed functions, with many examples of application and calculus. (Author) 24 refs.

  11. Construction and analysis of SSH cDNA library of human vascular endothelial cells related to gastrocarcinoma

    OpenAIRE

    2003-01-01

    AIM: To construct subtracted cDNA libraries of human vascular endothelial cells (VECs) related to gastrocarcinoma using suppression substractive hybridization (SSH) and to analyze cDNA libraries of gastrocarcinoma and VECs in Cancer Gene Anatomy Project (CGAP) database.

  12. Sub-threshold standard cell library design for ultra-low power biomedical applications.

    Science.gov (United States)

    Li, Ming-Zhong; Ieong, Chio-In; Law, Man-Kay; Mak, Pui-In; Vai, Mang-I; Martins, Rui P

    2013-01-01

    Portable/Implantable biomedical applications usually exhibit stringent power budgets for prolonging battery life time, but loose operating frequency requirements due to small bio-signal bandwidths, typically below a few kHz. The use of sub-threshold digital circuits is ideal in such scenario to achieve optimized power/speed tradeoffs. This paper discusses the design of a sub-threshold standard cell library using a standard 0.18-µm CMOS technology. A complete library of 56 standard cells is designed and the methodology is ensured through schematic design, transistor width scaling and layout design, as well as timing, power and functionality characterization. Performance comparison between our sub-threshold standard cell library and a commercial standard cell library using a 5-stage ring oscillator and an ECG designated FIR filter is performed. Simulation results show that our library achieves a total power saving of 95.62% and a leakage power reduction of 97.54% when compared with the same design implemented by the commercial standard cell library (SCL).

  13. An Information Access Model at a Distant Branch Library

    Science.gov (United States)

    Stratton, John M.

    2004-01-01

    Academic branch libraries located at a distance from the parent institution often face unique challenges in meeting users' needs for scholarly information. This is especially true for distant branch libraries that do not have a specialized function or collection, but who often face the challenge of meeting users' needs for scholarly materials…

  14. A Model for Designing Library Instruction for Distance Learning

    Science.gov (United States)

    Rand, Angela Doucet

    2013-01-01

    Providing library instruction in distance learning environments presents a unique set of challenges for instructional librarians. Innovations in computer-mediated communication and advances in cognitive science research provide the opportunity for designing library instruction that meets a variety of student information seeking needs. Using a…

  15. Building Component Library: An Online Repository to Facilitate Building Energy Model Creation; Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Fleming, K.; Long, N.; Swindler, A.

    2012-05-01

    This paper describes the Building Component Library (BCL), the U.S. Department of Energy's (DOE) online repository of building components that can be directly used to create energy models. This comprehensive, searchable library consists of components and measures as well as the metadata which describes them. The library is also designed to allow contributors to easily add new components, providing a continuously growing, standardized list of components for users to draw upon.

  16. Open resource metagenomics: a model for sharing metagenomic libraries.

    Science.gov (United States)

    Neufeld, J D; Engel, K; Cheng, J; Moreno-Hagelsieb, G; Rose, D R; Charles, T C

    2011-11-30

    Both sequence-based and activity-based exploitation of environmental DNA have provided unprecedented access to the genomic content of cultivated and uncultivated microorganisms. Although researchers deposit microbial strains in culture collections and DNA sequences in databases, activity-based metagenomic studies typically only publish sequences from the hits retrieved from specific screens. Physical metagenomic libraries, conceptually similar to entire sequence datasets, are usually not straightforward to obtain by interested parties subsequent to publication. In order to facilitate unrestricted distribution of metagenomic libraries, we propose the adoption of open resource metagenomics, in line with the trend towards open access publishing, and similar to culture- and mutant-strain collections that have been the backbone of traditional microbiology and microbial genetics. The concept of open resource metagenomics includes preparation of physical DNA libraries, preferably in versatile vectors that facilitate screening in a diversity of host organisms, and pooling of clones so that single aliquots containing complete libraries can be easily distributed upon request. Database deposition of associated metadata and sequence data for each library provides researchers with information to select the most appropriate libraries for further research projects. As a starting point, we have established the Canadian MetaMicroBiome Library (CM(2)BL [1]). The CM(2)BL is a publicly accessible collection of cosmid libraries containing environmental DNA from soils collected from across Canada, spanning multiple biomes. The libraries were constructed such that the cloned DNA can be easily transferred to Gateway® compliant vectors, facilitating functional screening in virtually any surrogate microbial host for which there are available plasmid vectors. The libraries, which we are placing in the public domain, will be distributed upon request without restriction to members of both the

  17. Equalizing Access to Electronic Networked Resources: A Model for Rural Libraries in the United States.

    Science.gov (United States)

    Senkevitch, Judith J.; Wolfram, Dietmar

    1994-01-01

    Provides an overview of the current state of networking technology in rural libraries and describes a model for educating rural librarians in accessing electronic networks. Topics discussed include information needs in rural libraries; telecommunications technology access in rural areas; and examples of services to enhance information access.…

  18. An Analysis of Academic Research Libraries Assessment Data: A Look at Professional Models and Benchmarking Data

    Science.gov (United States)

    Lewin, Heather S.; Passonneau, Sarah M.

    2012-01-01

    This research provides the first review of publicly available assessment information found on Association of Research Libraries (ARL) members' websites. After providing an overarching review of benchmarking assessment data, and of professionally recommended assessment models, this paper examines if libraries contextualized their assessment…

  19. Assessment of a 42 metal salts chemical library in mouse embryonic stem cells

    Science.gov (United States)

    The developmental effects of xenobiotics on differentiation can be profiled using mouse embryonic stem cells (mESCs). The adherent cell differentiation and cytotoxicity (ACDC) technique was used to evaluate a library of 42 metal and metaloid salts. Jl mESCs were allowed to prolif...

  20. The National Resource Library for Science and Technology in Sweden: A Nordic model of cooperating technology libraries

    Science.gov (United States)

    Lagar, Gunnar

    1994-01-01

    The scope of this presentation is to give a state-of-the-art report on the present situation of Nordic technology libraries, to elaborate on a plan for national resource libraries in Sweden, and to share how the Royal Institute of Technology Library in Stockholm (KTHB) has fostered a network of cooperating libraries in order to optimize government funding for the system of resource libraries.

  1. Mimotopes for alloreactive and conventional T cells in a peptide-MHC display library.

    Directory of Open Access Journals (Sweden)

    Frances Crawford

    2004-04-01

    Full Text Available The use of peptide libraries for the identification and characterization of T cell antigen peptide epitopes and mimotopes has been hampered by the need to form complexes between the peptides and an appropriate MHC molecule in order to construct a complete T cell ligand. We have developed a baculovirus-based peptide library method in which the sequence encoding the peptide is embedded within the genes for the MHC molecule in the viral DNA, such that insect cells infected with virus encoding a library of different peptides each displays a unique peptide-MHC complex on its surface. We have fished in such a library with two different fluorescent soluble T cell receptors (TCRs, one highly peptide specific and the other broadly allo-MHC specific and hypothesized to be much less focused on the peptide portion of the ligand. A single peptide sequence was selected by the former alphabetaTCR that, not unexpectedly, was highly related to the immunizing peptide. As hypothesized, the other alphabetaTCR selected a large family of peptides, related only by a similarity to the immunizing peptide at the p5 position. These findings have implications for the relative importance of peptide and MHC in TCR ligand recognition. This display method has broad applications in T cell epitope identification and manipulation and should be useful in general in studying interactions between complex proteins.

  2. An Analytical Model for Service Profile Based Service Quality of an Institutional eLibrary

    CERN Document Server

    Abbas, Ash Mohammad

    2011-01-01

    Devising a scheme for evaluating the service quality of an institutional electronic library is a difficult and challenging task. The challenge comes from the fact that the services provided by an institutional electronic library depend upon the contents requested by the users and the contents housed by the library. Different types of users might be interested in different types of contents. In this paper, we propose a technique for evaluating the service quality of an institutional electronic library. Our scheme is based on the service profiles of contents requested by the users at the server side which is hosted at the library. Further, we propose models to analyze the service quality of an electronic library. For analyzing the service quality, we present two analytical models. The first one is based on the number of days by which the item to be served by the library is delayed and the penalty points per day for the duration for which the item is delayed. The second model is based on the credits earned by th...

  3. Servant-Leadership as a Model for Library Administration.

    Science.gov (United States)

    Doncevic, John

    2003-01-01

    Discussion of the need for library administration to change from traditional methods based on power and competition focuses on the concept of servant-leadership. Explains characteristics of a servant-leader, including being authentic, being present, being vulnerable and choosing appropriate responses, being accepting, and being useful. (LRW)

  4. Systems analysis of quantitative shRNA-library screens identifies regulators of cell adhesion

    Directory of Open Access Journals (Sweden)

    Huang XiaoDong

    2008-06-01

    Full Text Available Abstract Background High throughput screens with RNA interference technology enable loss-of-function analyses of gene activities in mammalian cells. While the construction of genome-scale shRNA libraries has been successful, results of large-scale screening of those libraries can be difficult to analyze because of the relatively high noise levels and the fact that not all shRNAs in a library are equally effective in silencing gene expression. Results We have screened a library consisting of 43,828 shRNAs directed against 8,500 human genes for functions that are necessary in cell detachment induced by a constitutively activated c-Abl tyrosine kinase. To deal with the issues of noise and uncertainty of knockdown efficiencies, we employed an analytical strategy that combines quantitative data analysis with biological knowledge, i.e. Gene Ontology and pathway information, to increase the power of the RNAi screening technique. Using this strategy we found 16 candidate genes to be involved in Abl-induced disruption of cell adhesion, and verified that the knockdown of IL6ST is associated with enhanced cell attachment. Conclusion Our results suggest that the power of genome-wide quantitative shRNA screens can be significantly increased when analyzed using a systems biology-based approach to identify functional gene networks.

  5. First siRNA library screening in hard-to-transfect HUVEC cells.

    Science.gov (United States)

    Zumbansen, Markus; Altrogge, Ludger M; Spottke, Nicole Ue; Spicker, Sonja; Offizier, Sheila M; Domzalski, Sandra Bs; St Amand, Allison L; Toell, Andrea; Leake, Devin; Mueller-Hartmann, Herbert A

    2009-10-29

    Meaningful RNAi-based data for target gene identification are strongly dependent on the use of a biologically relevant cell type and efficient delivery of highly functional siRNA reagents into the selected cell type. Here we report the use of the Amaxa(R) Nucleofector(R) 96-well Shuttle(R) System for siRNA screening in primary cells. Lonza's Clonetics(R) HUVEC-Human Umbilical Vein Endothelial Cells were transfected with Thermo Scientific Dharmacon siGENOME(R) siRNA Libraries targeting protein kinases and cell cycle related genes and screened for genes important for cell viability. Of the 37 primary hits, down-regulation of 33 led to reduced proliferation or increased cell death, while down-regulation of two allowed for better cell viability. The validated four genes out of the 16 strongest primary hits (COPB2, PYCS, CDK4 and MYC) influenced cell proliferation to varying degrees, reflecting differing importance for survival of HUVEC cells. Our results demonstrate that the Nucleofector(R) 96-well Shuttle(R) System allows the delivery of siRNA libraries in cell types previously considered to be difficult to transfect. Thus, identification and validation of gene targets can now be conducted in primary cells, as the selection of cell types is not limited to those accessible by lipid-mediated transfection.

  6. T-cell libraries allow simple parallel generation of multiple peptide-specific human T-cell clones

    Science.gov (United States)

    Theaker, Sarah M.; Rius, Cristina; Greenshields-Watson, Alexander; Lloyd, Angharad; Trimby, Andrew; Fuller, Anna; Miles, John J.; Cole, David K.; Peakman, Mark; Sewell, Andrew K.; Dolton, Garry

    2016-01-01

    Isolation of peptide-specific T-cell clones is highly desirable for determining the role of T-cells in human disease, as well as for the development of therapies and diagnostics. However, generation of monoclonal T-cells with the required specificity is challenging and time-consuming. Here we describe a library-based strategy for the simple parallel detection and isolation of multiple peptide-specific human T-cell clones from CD8+ or CD4+ polyclonal T-cell populations. T-cells were first amplified by CD3/CD28 microbeads in a 96U-well library format, prior to screening for desired peptide recognition. T-cells from peptide-reactive wells were then subjected to cytokine-mediated enrichment followed by single-cell cloning, with the entire process from sample to validated clone taking as little as 6 weeks. Overall, T-cell libraries represent an efficient and relatively rapid tool for the generation of peptide-specific T-cell clones, with applications shown here in infectious disease (Epstein–Barr virus, influenza A, and Ebola virus), autoimmunity (type 1 diabetes) and cancer. PMID:26826277

  7. An efficient strategy for cell-based antibody library selection using an integrated vector system

    Directory of Open Access Journals (Sweden)

    Yoon Hyerim

    2012-09-01

    Full Text Available Abstract Background Cell panning of phage-displayed antibody library is a powerful tool for the development of therapeutic and imaging agents since disease-related cell surface proteins in native complex conformation can be directly targeted. Here, we employed a strategy taking advantage of an integrated vector system which allows rapid conversion of scFv-displaying phage into scFv-Fc format for efficient cell-based scFv library selection on a tetraspanin protein, CD9. Results A mouse scFv library constructed by using a phagemid vector, pDR-D1 was subjected to cell panning against stable CD9 transfectant, and the scFv repertoire from the enriched phage pool was directly transferred to a mammalian cassette vector, pDR-OriP-Fc1. The resulting constructs enabled transient expression of enough amounts of scFv-Fcs in HEK293E cells, and flow cytometric screening of binders for CD9 transfectant could be performed simply by using the culture supernatants. All three clones selected from the screening showed correct CD9-specificity. They could immunoprecipitate CD9 molecules out of the transfectant cell lysate and correctly stain endogenous CD9 expression on cancer cell membrane. Furthermore, competition assay with a known anti-CD9 monoclonal antibody (mAb suggested that the binding epitopes of some of them overlap with that of the mAb which resides within the large extracellular loop of CD9. Conclusions This study demonstrates that scFv-Fc from mammalian transient expression can be chosen as a reliable format for rapid screening and validation in cell-based scFv library selection, and the strategy described here will be applicable to efficient discovery of antibodies to diverse cell-surface targets.

  8. A Two-Tiered Model for Analyzing Library Web Site Usage Statistics, Part 1: Web Server Logs.

    Science.gov (United States)

    Cohen, Laura B.

    2003-01-01

    Proposes a two-tiered model for analyzing web site usage statistics for academic libraries: one tier for library administrators that analyzes measures indicating library use, and a second tier for web site managers that analyzes measures aiding in server maintenance and site design. Discusses the technology of web site usage statistics, and…

  9. Portuguese School Libraries Evaluation Model: An Analysis of Primary Schools' Results for the "Reading and Literacy" Domain

    Science.gov (United States)

    Martins, Jorge Tiago; Martins, Rosa Maria

    2012-01-01

    This paper reports the implementation results of the Portuguese School Libraries Evaluation Model, more specifically the results of primary schools self-evaluation of their libraries' reading promotion and information literacy development activities. School libraries that rated their performance as either "Excellent" or "Poor"…

  10. Portuguese School Libraries Evaluation Model: An Analysis of Primary Schools' Results for the "Reading and Literacy" Domain

    Science.gov (United States)

    Martins, Jorge Tiago; Martins, Rosa Maria

    2012-01-01

    This paper reports the implementation results of the Portuguese School Libraries Evaluation Model, more specifically the results of primary schools self-evaluation of their libraries' reading promotion and information literacy development activities. School libraries that rated their performance as either "Excellent" or "Poor" have been…

  11. 图书馆系统软件评价模型%Software Evaluation Model for Libraries

    Institute of Scientific and Technical Information of China (English)

    潘英; 丁晶

    2000-01-01

    The paper deals with the assessment of software products for libraries'computers before libraries purchase software products for documentary information management. Based on the Analytic Hierarchy Process, and according to the general evaluation criterions, an analytic hierarchy model is used to evaluate three computer software products for libraries.

  12. Use of cryopreserved cell aliquots in the high-throughput screening of small interfering RNA libraries.

    Science.gov (United States)

    Swearingen, Elissa A; Fajardo, Flordeliza; Wang, Xiangyun; Watson, J E Vivienne; Quon, Kim C; Kassner, Paul D

    2010-06-01

    Screening small interfering RNA (siRNA) libraries holds the potential to elucidate gene function as well as discover new targets for the therapeutic treatment of disease. Since the inception of siRNA as a discovery tool, there have been progressive improvements in siRNA design algorithms, the transfection reagents used to deliver them, and the assay formats used to monitor phenotypic changes. These changes have helped to improve the quality of the data emerging from siRNA screens. One variable that introduces inconsistency into high-throughput screening (HTS) of siRNA libraries is the state of the cells used in the assays. Multiple factors can contribute to differences in transfection efficiency as well as the basic cell biology, which can lead to differences in the genes identified in siRNA screens. The authors have developed a system using frozen cell aliquots to use in siRNA HTS, so that a major source of variability introduced into cell-based screens can be standardized. In addition, by transiently transfecting plasmids into cell lines and then freezing these cells down to use in siRNA transfection experiments, they have used this same technology to create new cell lines. This process of using aliquots of frozen cells is logistically advantageous in an HTS setting, as it reduces the time spent maintaining cell lines, as well as reducing possible downtime in screening due to lack of cells or poor cell health.

  13. MISSION LentiPlex pooled shRNA library screening in mammalian cells.

    Science.gov (United States)

    Coussens, Matthew J; Corman, Courtney; Fischer, Ashley L; Sago, Jack; Swarthout, John

    2011-12-21

    RNA interference (RNAi) is an intrinsic cellular mechanism for the regulation of gene expression. Harnessing the innate power of this system enables us to knockdown gene expression levels in loss of gene function studies. There are two main methods for performing RNAi. The first is the use of small interfering RNAs (siRNAs) that are chemically synthesized, and the second utilizes short-hairpin RNAs (shRNAs) encoded within plasmids. The latter can be transfected into cells directly or packaged into replication incompetent lentiviral particles. The main advantages of using lentiviral shRNAs is the ease of introduction into a wide variety of cell types, their ability to stably integrate into the genome for long term gene knockdown and selection, and their efficacy in conducting high-throughput loss of function screens. To facilitate this we have created the LentiPlex pooled shRNA library. The MISSION LentiPlex Human shRNA Pooled Library is a genome-wide lentiviral pool produced using a proprietary process. The library consists of over 75,000 shRNA constructs from the TRC collection targeting 15,000+ human genes. Each library is tested for shRNA representation before product release to ensure robust library coverage. The library is provided in a ready-to-use lentiviral format at titers of at least 5 x 10(8) TU/ml via p24 assay and is pre-divided into ten subpools of approximately 8,000 shRNA constructs each. Amplification and sequencing primers are also provided for downstream target identification. Previous studies established a synergistic antitumor activity of TRAIL when combined with Paclitaxel in A549 cells, a human lung carcinoma cell line. In this study we demonstrate the application of a pooled LentiPlex shRNA library to rapidly conduct a positive selection screen for genes involved in the cytotoxicity of A549 cells when exposed to TRAIL and Paclitaxel. One barrier often encountered with high-throughput screens is the cost and difficulty in deconvolution; we

  14. ModFossa: A library for modeling ion channels using Python.

    Science.gov (United States)

    Ferneyhough, Gareth B; Thibealut, Corey M; Dascalu, Sergiu M; Harris, Frederick C

    2016-06-01

    The creation and simulation of ion channel models using continuous-time Markov processes is a powerful and well-used tool in the field of electrophysiology and ion channel research. While several software packages exist for the purpose of ion channel modeling, most are GUI based, and none are available as a Python library. In an attempt to provide an easy-to-use, yet powerful Markov model-based ion channel simulator, we have developed ModFossa, a Python library supporting easy model creation and stimulus definition, complete with a fast numerical solver, and attractive vector graphics plotting.

  15. Library Use

    DEFF Research Database (Denmark)

    Konzack, Lars

    2012-01-01

    A seminar paper about a survey of role-playing games in public libraries combined with three cases and a presentation of a model.......A seminar paper about a survey of role-playing games in public libraries combined with three cases and a presentation of a model....

  16. Online Library of Scientific Models, A New Way to Teach, Learn, and Share Learning Experience

    Directory of Open Access Journals (Sweden)

    Hatem H. Elrefaei

    2008-05-01

    Full Text Available While scientific models are usually communicated in paper format, the need to reprogram every model by every user results in a huge loss of efforts, time and money, hence lengthening the educational and research developing cycle and loosing the learning experience and expertise gained by every user. We demonstrate a new portal www.imodelit.com that hosts a library of scientific models for electrical engineers in the form of java applets. They are all conformal, informative, with strong input and output filing system. The software design allows a fast developing cycle and it represents a strong infrastructure that can be shared by researchers to develop their own applets to be posted on the library. We aim for a community based library of scientific models that enhances the e-learning process for engineering students.

  17. Optimizing electronic standard cell libraries for variability tolerance through the nano-CMOS grid.

    Science.gov (United States)

    Walker, James Alfred; Sinnott, Richard; Stewart, Gordon; Hilder, James A; Tyrrell, Andy M

    2010-08-28

    The project Meeting the Design Challenges of nano-CMOS Electronics (http://www.nanocmos.ac.uk) was funded by the Engineering and Physical Sciences Research Council to tackle the challenges facing the electronics industry caused by the decreasing scale of transistor devices, and the inherent variability that this exposes in devices and in the circuits and systems in which they are used. The project has developed a grid-based solution that supports the electronics design process, incorporating usage of large-scale high-performance computing (HPC) resources, data and metadata management and support for fine-grained security to protect commercially sensitive datasets. In this paper, we illustrate how the nano-CMOS (complementary metal oxide semiconductor) grid has been applied to optimize transistor dimensions within a standard cell library. The goal is to extract high-speed and low-power circuits which are more tolerant of the random fluctuations that will be prevalent in future technology nodes. Using statistically enhanced circuit simulation models based on three-dimensional atomistic device simulations, a genetic algorithm is presented that optimizes the device widths within a circuit using a multi-objective fitness function exploiting the nano-CMOS grid. The results show that the impact of threshold voltage variation can be reduced by optimizing transistor widths, and indicate that a similar method could be extended to the optimization of larger circuits.

  18. Evaluation of a Digital Library by Means of Quality Function Deployment (QFD) and the Kano Model

    Science.gov (United States)

    Garibay, Cecilia; Gutierrez, Humberto; Figueroa, Arturo

    2010-01-01

    This paper proposes utilizing a combination of the Quality Function Deployment (QFD)-Kano model as a useful tool to evaluate service quality. The digital library of the University of Guadalajara (Mexico) is presented as a case study. Data to feed the QFD-Kano model was gathered by an online questionnaire that was made available to users on the…

  19. Software Technology for Adaptable, Reliable System (STARS) Program. Reuse Library Process Model.

    Science.gov (United States)

    The Process Model described in this document is part of the Guidebook requirements for the STARS Reuse Library described in Subtask IS40.3 of the S...Increment Task Proposal for STARS. The objective of a Process Model is to formally characterize the various processes that take place in the context of

  20. From activity to learning: using cultural historical activity theory to model school library programmes and practices

    Directory of Open Access Journals (Sweden)

    E.M. Meyers

    2007-01-01

    Full Text Available Introduction. changes in educational policy and practice demand that we examine school library programmes from a new perspective. As a model that takes a developmental view of minds in context, Cultural Historical Activity Theory is particularly well suited to the study of school libraries and the learning that occurs therein. This paper focuses on the activity theoretic concepts of 'contradictions' and 'expansive learning' as they relate to the development of best practices. Method. Developmental Work Research was applied as a guiding methodology in an intervention study of six high school libraries in Washington State, USA. Library activity is illustrated from multiple perspectives using a triangulated, qualitative approach. Analysis. contradictions and tensions in the general school library activity system are identified, and an intervention was designed to facilitiate the development of expansive instruments. A case example illustrates a second level of analysis and specific points of intervention. Results. analysis reveals that the tensions and contradictions provide opportunities for expansive learning on the part of the teacher-Librarians. The research team can use practitioners' zones of proximal development to guide the alignment of library programme goals and practices. Conclusion. : some limitations and future promise of the framework and its application are discussed. The proposed activity theory toolkit suggest a new way of exploring the practices of teacher-librarians, incorporating research evidence, professional expertise, and reflective decision making.

  1. Synthesis and cell-free cloning of DNA libraries using programmable microfluidics.

    Science.gov (United States)

    Ben Yehezkel, Tuval; Rival, Arnaud; Raz, Ofir; Cohen, Rafael; Marx, Zipora; Camara, Miguel; Dubern, Jean-Frédéric; Koch, Birgit; Heeb, Stephan; Krasnogor, Natalio; Delattre, Cyril; Shapiro, Ehud

    2016-02-29

    Microfluidics may revolutionize our ability to write synthetic DNA by addressing several fundamental limitations associated with generating novel genetic constructs. Here we report the first de novo synthesis and cell-free cloning of custom DNA libraries in sub-microliter reaction droplets using programmable digital microfluidics. Specifically, we developed Programmable Order Polymerization (POP), Microfluidic Combinatorial Assembly of DNA (M-CAD) and Microfluidic In-vitro Cloning (MIC) and applied them to de novo synthesis, combinatorial assembly and cell-free cloning of genes, respectively. Proof-of-concept for these methods was demonstrated by programming an autonomous microfluidic system to construct and clone libraries of yeast ribosome binding sites and bacterial Azurine, which were then retrieved in individual droplets and validated. The ability to rapidly and robustly generate designer DNA molecules in an autonomous manner should have wide application in biological research and development.

  2. Two agricultural production data libraries for risk assessment models. [Ovis aries; Capra hircus; Sus scrofa; Gallus domesticus; Meleagris gallopavo

    Energy Technology Data Exchange (ETDEWEB)

    Baes, C.F. III; Shor, R.W.; Sharp, R.D.; Sjoreen, A.L.

    1985-01-01

    Two data libraries based on the 1974 US Census of Agriculture are described. The data packages (AGDATC and AGDATG) are available from the Radiation Shielding Information Center (RSIC), Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831. Agricultural production and land-use information by county (AGDATC) or by 1/2 by 1/2 degree longitude-latitude grid cell (AGDATG) provide geographical resolution of the data. The libraries were designed for use in risk assessment models that simulate the transport of radionuclides from sources of airborne release through food chains to man. However, they are also suitable for use in the assessment of other airborne pollutants that can affect man from a food ingestion pathway such as effluents from synfuels or coal-fired power plants. The principal significance of the data libraries is that they provide default location-specific food-chain transport parameters when site-specific information are unavailable. Plant food categories in the data libraries include leafy vegetables, vegetables and fruits exposed to direct deposition of airborne pollutants, vegetables and fruits protected from direct deposition, and grains. Livestock feeds are also tabulated in four categories: pasture, grain, hay, and silage. Pasture was estimated by a material balance of cattle and sheep inventories, forage feed requirements, and reported harvested forage. Cattle (Bos spp.), sheep (Ovis aries), goat (Capra hircus), hog (Sus scrofa), chicken (Gallus domesticus), and turkey (Meleagris gallopavo) inventories or sales are also tabulated in the data libraries and can be used to provide estimates of meat, eggs, and milk production. Honey production also is given. Population, irrigation, and meteorological information are also listed.

  3. Linking Formal and Informal Science Education: A Successful Model using Libraries, Volunteers and NASA Resources

    Science.gov (United States)

    Race, M. S.; Lafayette Library; Learning Center Foundation (Lllcf)

    2011-12-01

    In these times of budget cuts, tight school schedules, and limited opportunities for student field trips and teacher professional development, it is especially difficult to expose elementary and middle school students to the latest STEM information-particularly in the space sciences. Using our library as a facilitator and catalyst, we built a volunteer-based, multi-faceted, curriculum-linked program for students and teachers in local middle schools (Grade 8) and showcased new astronomical and planetary science information using mainly NASA resources and volunteer effort. The project began with the idea of bringing free NASA photo exhibits (FETTU) to the Lafayette and Antioch Libraries for public display. Subsequently, the effort expanded by adding layers of activities that brought space and science information to teachers, students and the pubic at 5 libraries and schools in the 2 cities, one of which serves a diverse, underserved community. Overall, the effort (supported by a pilot grant from the Bechtel Foundation) included school and library based teacher workshops with resource materials; travelling space museum visits with hands-on activities (Chabot-to-Go); separate powerpoint presentations for students and adults at the library; and concurrent ancillary space-related themes for young children's programs at the library. This pilot project, based largely on the use of free government resources and online materials, demonstrated that volunteer-based, standards-linked STEM efforts can enhance curriculum at the middle school, with libraries serving a special role. Using this model, we subsequently also obtained a small NASA-Space Grant award to bring star parties and hand-on science activities to three libraries this Fall, linking with numerous Grade 5 teachers and students in two additional underserved areas of our county. It's not necessary to reinvent the wheel, you just collect the pieces and build on what you already have.

  4. An Exploratory Study to Develop an Alternative Model of Public Library Management Using the Institute of Museum and Library Services' Public Library Statistics

    Science.gov (United States)

    Kim, Giyeong; Yu, So Young

    2011-01-01

    In this explorative study, we first investigate current use of public library statistics in public library management to identify a governing framework and then carefully suggest an alternative framework with income as a goal for sustainability. The meaning of income in terms of management is also discussed. Within this framework, we conduct a…

  5. Identification of ligand-target pairs from combined libraries of small molecules and unpurified protein targets in cell lysates.

    Science.gov (United States)

    McGregor, Lynn M; Jain, Tara; Liu, David R

    2014-02-26

    We describe the development and validation of interaction determination using unpurified proteins (IDUP), a method that selectively amplifies DNA sequences identifying ligand+target pairs from a mixture of DNA-linked small molecules and unpurified protein targets in cell lysates. By operating in cell lysates, IDUP preserves native post-translational modifications and interactions with endogenous binding partners, thereby enabling the study of difficult-to-purify targets and increasing the potential biological relevance of detected interactions compared with methods that require purified proteins. In IDUP, target proteins are associated with DNA oligonucleotide tags either non-covalently using a DNA-linked antibody or covalently using a SNAP-tag. Ligand-target binding promotes hybridization of a self-priming hairpin that is extended by a DNA polymerase to create a DNA strand that contains sequences identifying both the target and its ligand. These sequences encoding ligand+target pairs are selectively amplified by PCR and revealed by high-throughput DNA sequencing. IDUP can respond to the effect of affinity-modulating adaptor proteins in cell lysates that would be absent in ligand screening or selection methods using a purified protein target. This capability was exemplified by the 100-fold amplification of DNA sequences encoding FRB+rapamycin or FKBP+rapamycin in samples overexpressing both FRB and FKBP (FRB·rapamycin+FKBP, Kd ≈ 100 fM; FKBP·rapamycin+FRB, Kd = 12 nM). In contrast, these sequences were amplified 10-fold less efficiently in samples overexpressing either FRB or FKBP alone (rapamycin+FKBP, Kd ≈ 0.2 nM; rapamcyin+FRB, Kd = 26 μM). Finally, IDUP was used to process a model library of DNA-linked small molecules and a model library of cell lysates expressing SNAP-target fusions combined in a single sample. In this library×library experiment, IDUP resulted in enrichment of sequences corresponding to five known ligand+target pairs ranging in binding

  6. Screening cDNA Libraries Using Partial Probes to Isolate Full-Length cDNAs from Vascular Cells.

    Science.gov (United States)

    Csortos, C; Lazar, V; Garcia, J G

    1999-01-01

    The purpose of screening cDNA libraries is to isolate a particular cDNA clone encoding a mRNA and by implication, a protein, of interest. The screening is based on identification of the desired clone among a large number of recombinant clones within the library selected (1,2). As an example of both the utility and power of library screening, we will relate our own library screening efforts utilized to isolate the nonmuscle high molecular weight myosin light chain kinase isoform from a human umbilical vein endothelial cell cDNA library (3). This unique nonmuscle myosin light chain kinase isoform phosphorylates myosin light chains, thereby playing an essential role in agonist-mediated endothelial cell contraction, paracellular gap formation and increased vascular permeability. We are hopeful that this step-by-step approach will help the reader to understand the discussed methods.

  7. Strategic Model for Implementing Knowledge Management in Libraries and Information Services

    Directory of Open Access Journals (Sweden)

    Octavia-Luciana Porumbeanu

    2009-01-01

    Full Text Available In most fields of activity one can notice the trend towards knowledge-based organizations and towards flexible organizations that encourage innovation and change. In this context, knowledge management has become a fundamental process for all types of organizations in society. Libraries and information services are integral part of the knowledge system, these organizations being one of the forms that contribute to knowledge development. This article presents a strategic model for implementing knowledge management in libraries and information services, created on the basis of the results from theoretical researches and practical applications of this process in organizations from different countries and different fields of activity and keeping in mind the specific characteristics of libraries and information services. The model is based on five fundamental elements from which one should begin implementation of a knowledge management function in the organizations engaged in information transfer.

  8. Targeting Phosphatidylserine on Apoptotic Cells with Phages and Peptides Selected from a Bacteriophage Display Library

    Directory of Open Access Journals (Sweden)

    Ruping Shao

    2007-11-01

    Full Text Available Phosphatidylserine (PS is a well-characterized biomarker for apoptosis. Ligands that bind to PS can be used for noninvasive imaging of therapy-induced cell death, particularly apoptosis. In this study, we screened a random 12-mer peptide phage library on liposomes prepared from PS. One clone displaying the peptide SVSVGMKPSPRP (designated as PS3-10 bound to PS approximately 4-fold better than its binding to phosphatidylcholine and 18-fold better than to bovine serum albumin in a solid-phase binding assay. In addition, the binding of the corresponding PS3-10 peptide to PS was significantly higher than that of a scrambled peptide. PS3-10 phages, but not a control 4-2-2 phage, bound to aged red blood cells that had PS exposed on their surface. Binding of PS3-10 phages and PS3-10 peptide to TRAIL-induced apoptotic DLD1 cells was 3.2 and 5.4 times higher than their binding to untreated viable cells, respectively. Significantly, immunohistochemical staining confirmed selective binding of PS3-10 phages to apoptotic cells. Our data suggest that panning of phage display libraries may allow the selection of suitable peptide ligands for apoptotic cells and that PS3-10 peptide may serve as a template for further development of molecular probes for in vitro and in vivo imaging of apoptosis.

  9. Mining non-model genomic libraries for microsatellites: BAC versus EST libraries and the generation of allelic richness

    Directory of Open Access Journals (Sweden)

    Shaw Kerry L

    2010-07-01

    Full Text Available Abstract Background Simple sequence repeats (SSRs are tandemly repeated sequence motifs common in genomic nucleotide sequence that often harbor significant variation in repeat number. Frequently used as molecular markers, SSRs are increasingly identified via in silico approaches. Two common classes of genomic resources that can be mined are bacterial artificial chromosome (BAC libraries and expressed sequence tag (EST libraries. Results 288 SSR loci were screened in the rapidly radiating Hawaiian swordtail cricket genus Laupala. SSRs were more densely distributed and contained longer repeat structures in BAC library-derived sequence than in EST library-derived sequence, although neither repeat density nor length was exceptionally elevated despite the relatively large genome size of Laupala. A non-random distribution favoring AT-rich SSRs was observed. Allelic diversity of SSRs was positively correlated with repeat length and was generally higher in AT-rich repeat motifs. Conclusion The first large-scale survey of Orthopteran SSR allelic diversity is presented. Selection contributes more strongly to the size and density distributions of SSR loci derived from EST library sequence than from BAC library sequence, although all SSRs likely are subject to similar physical and structural constraints, such as slippage of DNA replication machinery, that may generate increased allelic diversity in AT-rich sequence motifs. Although in silico approaches work well for SSR locus identification in both EST and BAC libraries, BAC library sequence and AT-rich repeat motifs are generally superior SSR development resources for most applications.

  10. Construction of an extended library of adult male 3D models: rationale and results

    Science.gov (United States)

    Broggio, D.; Beurrier, J.; Bremaud, M.; Desbrée, A.; Farah, J.; Huet, C.; Franck, D.

    2011-12-01

    In order to best cover the possible extent of heights and weights of male adults the construction of 25 whole body 3D models has been undertaken. Such a library is thought to be useful to specify the uncertainties and relevance of dosimetry calculations carried out with models representing individuals of average body heights and weights. Representative 3D models of Caucasian body types are selected in a commercial database according to their height and weight, and 3D models of the skeleton and internal organs are designed using another commercial dataset. A review of the literature enabled one to fix volume or mass target values for the skeleton, soft organs, skin and fat content of the selected individuals. The composition of the remainder tissue is fixed so that the weight of the voxel models equals the weight of the selected individuals. After mesh and NURBS modelling, volume adjustment of the selected body shapes and additional voxel-based work, 25 voxel models with 109 identified organs or tissue are obtained. Radiation transport calculations are carried out with some of the developed models to illustrate potential uses. The following points are discussed throughout this paper: justification of the fixed or obtained models' features regarding available and relevant literature data; workflow and strategy for major modelling steps; advantages and drawbacks of the obtained library as compared with other works. The construction hypotheses are explained and justified in detail since future calculation results obtained with this library will depend on them.

  11. Library synthesis, screening, and discovery of modified Zinc(II)-Bis(dipicolylamine) probe for enhanced molecular imaging of cell death.

    Science.gov (United States)

    Plaunt, Adam J; Harmatys, Kara M; Wolter, William R; Suckow, Mark A; Smith, Bradley D

    2014-04-16

    Zinc(II)-bis(dipicolylamine) (Zn-BDPA) coordination complexes selectively target the surfaces of dead and dying mammalian cells, and they have promise as molecular probes for imaging cell death. A necessary step toward eventual clinical imaging applications is the development of next-generation Zn-BDPA complexes with enhanced affinity for the cell death membrane biomarker, phosphatidylserine (PS). This study employed an iterative cycle of library synthesis and screening, using a novel rapid equilibrium dialysis assay, to discover a modified Zn-BDPA structure with high and selective affinity for vesicles containing PS. The lead structure was converted into a deep-red fluorescent probe and its targeting and imaging performance was compared with an unmodified control Zn-BDPA probe. The evaluation process included a series of FRET-based vesicle titration studies, cell microscopy experiments, and rat tumor biodistribution measurements. In all cases, the modified probe exhibited comparatively higher affinity and selectivity for the target membranes of dead and dying cells. The results show that this next-generation deep-red fluorescent Zn-BDPA probe is well suited for preclinical molecular imaging of cell death in cell cultures and animal models. Furthermore, it should be possible to substitute the deep-red fluorophore with alternative reporter groups that enable clinically useful, deep-tissue imaging modalities, such as MRI and nuclear imaging.

  12. Virtual Libraries: Interactive Support Software and an Application in Chaotic Models.

    Science.gov (United States)

    Katsirikou, Anthi; Skiadas, Christos; Apostolou, Apostolos; Rompogiannakis, Giannis

    This paper begins with a discussion of the characteristics and the singularity of chaotic systems, including dynamic systems theory, chaotic orbit, fractals, chaotic attractors, and characteristics of chaotic systems. The second section addresses the digital libraries (DL) concept and the appropriateness of chaotic models, including definition and…

  13. Partnerships in Medical Education: An Exploration of Library Service Models for Postgraduate Medicine at Macquarie University

    Science.gov (United States)

    Simons, Mary

    2008-01-01

    Macquarie University's new medical school, The Australian School of Advanced Medicine (ASAM), is developing a postgraduate program that incorporates a partnership with Macquarie University Library. The curriculum encompasses contemporary models of competency-based assessment, teamwork and lifelong learning that are integrated with research and…

  14. mr: A C++ library for the matching and running of the Standard Model parameters

    Science.gov (United States)

    Kniehl, Bernd A.; Pikelner, Andrey F.; Veretin, Oleg L.

    2016-09-01

    We present the C++ program library mr that allows us to reliably calculate the values of the running parameters in the Standard Model at high energy scales. The initial conditions are obtained by relating the running parameters in the MS bar renormalization scheme to observables at lower energies with full two-loop precision. The evolution is then performed in accordance with the renormalization group equations with full three-loop precision. Pure QCD corrections to the matching and running are included through four loops. We also provide a Mathematica interface for this program library.

  15. mr: a C++ library for the matching and running of the Standard Model parameters

    CERN Document Server

    Kniehl, Bernd A; Veretin, Oleg L

    2016-01-01

    We present the C++ program library mr that allows us to reliably calculate the values of the running parameters in the Standard Model at high energy scales. The initial conditions are obtained by relating the running parameters in the $\\overline{\\mathrm{MS}}$ renormalization scheme to observables at lower energies with full two-loop precision. The evolution is then performed in accordance with the renormalization group equations with full three-loop precision. Pure QCD corrections to the matching and running are included through four loops. We also provide a Mathematica interface for this program library.

  16. Generating Collaborative Systems for Digital Libraries: a Model-Driven Approach

    Directory of Open Access Journals (Sweden)

    Alessio Malizia

    2010-12-01

    Full Text Available The design and development of a digital library involves different stakeholders, such as: information architects, librarians, and domain experts, who need to agree on a common language to describe, discuss, and negotiate the services the library has to offer. To this end, high-level, language-neutral models have to be devised. Metamodeling techniques favor the definition of domainspecific visual languages through which stakeholders can share their views and directly manipulate representations of the domain entities. This paper describes CRADLE (Cooperative-Relational Approach to Digital Library Environments, a metamodel-based framework and visual language for the definition of notions and services related to the development of digital libraries. A collection of tools allows the automatic generation of several services, defined with the CRADLE visual language, and of the graphical user interfaces providing access to them for the final user. The effectiveness of the approach is illustrated by presenting digital libraries generated with CRADLE, while the CRADLE environment has been evaluated by using the cognitive dimensions framework.

  17. Construction of a large synthetic human Fab antibody library on yeast cell surface by optimized yeast mating.

    Science.gov (United States)

    Baek, Du-San; Kim, Yong-Sung

    2014-03-28

    Yeast surface-displayed antibody libraries provide an efficient and quantitative screening resource for given antigens, but suffer from typically modest library sizes owing to low yeast transformation efficiency. Yeast mating is an attractive method for overcoming the limit of yeast transformation to construct a large, combinatorial antibody library, but the optimal conditions have not been reported. Here, we report a large synthetic human Fab (antigen binding fragment) yeast surface-displayed library generated by stepwise optimization of yeast mating conditions. We first constructed HC (heavy chain) and LC (light chain) libraries, where all of the six CDRs (complementarity-determining regions) of the variable domains were diversified mimicking the human germline antibody repertoires by degenerate codons, onto single frameworks of VH3-23 and Vkappa1-16 germline sequences, in two haploid cells of opposite mating types. Yeast mating conditions were optimized in the order of cell density, media pH, and cell growth phase, yielding a mating efficiency of ~58% between the two haploid cells carrying HC and LC libraries. We constructed two combinatorial Fab libraries with CDR-H3 of 9 or 11 residues in length with colony diversities of more than 10(9) by one round of yeast mating between the two haploid HC and LC libraries, with modest diversity sizes of ~10(7). The synthetic human Fab yeast-displayed libraries exhibited relative amino acid compositions in each position of the six CDRs that were very similar to those of the designed repertoires, suggesting that they are a promising source for human Fab antibody screening.

  18. Modeling proteins using a super-secondary structure library and NMR chemical shift information.

    Science.gov (United States)

    Menon, Vilas; Vallat, Brinda K; Dybas, Joseph M; Fiser, Andras

    2013-06-04

    A remaining challenge in protein modeling is to predict structures for sequences with no sequence similarity to any experimentally solved structure. Based on earlier observations, the library of protein backbone supersecondary structure motifs (Smotifs) saturated about a decade ago. Therefore, it should be possible to build any structure from a combination of existing Smotifs with the help of limited experimental data that are sufficient to relate the backbone conformations of Smotifs between target proteins and known structures. Here, we present a hybrid modeling algorithm that relies on an exhaustive Smotif library and on nuclear magnetic resonance chemical shift patterns without any input of primary sequence information. In a test of 102 proteins, the algorithm delivered 90 homology-model-quality models, among them 24 high-quality ones, and a topologically correct solution for almost all cases. The current approach opens a venue to address the modeling of larger protein structures for which chemical shifts are available.

  19. The Arizona Universities Library Consortium patron-driven e-book model

    Directory of Open Access Journals (Sweden)

    Jeanne Richardson

    2013-03-01

    Full Text Available Building on Arizona State University's patron-driven acquisitions (PDA initiative in 2009, the Arizona Universities Library Consortium, in partnership with the Ingram Content Group, created a cooperative patron-driven model to acquire electronic books (e-books. The model provides the opportunity for faculty and students at the universities governed by the Arizona Board of Regents (ABOR to access a core of e-books made accessible through resource discovery services and online catalogs. These books are available for significantly less than a single ABOR university would expend for the same materials. The patron-driven model described is one of many evolving models in digital scholarship, and, although the Arizona Universities Library Consortium reports a successful experience, patron-driven models pose questions to stakeholders in the academic publishing industry.

  20. Fundamental principles of data assimilation underlying the Verdandi library: applications to biophysical model personalization within euHeart

    OpenAIRE

    Chapelle, Dominique; Fragu, Marc; Mallet, Vivien; Moireau, Philippe

    2013-01-01

    International audience; We present the fundamental principles of data assimilation underlying the Verdandi library, and how they are articulated with the modular architecture of the library. This translates -- in particular -- into the definition of standardized interfaces through which the data assimilation library interoperates with the model simulation software and the so-called observation manager. We also survey various examples of data assimilation applied to the personalization of biop...

  1. Geographic location as an access model to library collections – a pilot project of European Digital Library

    Directory of Open Access Journals (Sweden)

    Dalibor Radovan

    2007-01-01

    Full Text Available In the frames of the European eContentplus project European Digital Library (EDL a pilot GIS application was integrated in The European Library (TEL portal. The application was realized in the cooperation between the National and University Library of Slovenia and the Geodetic Institute of Slovenia. The pilot GIS application represents the beginning of the development of digital geolibrary where a map is the starting point leading to different geodifferentiated resources. At the same time, it also represents an upgrade of the static presentation of different kinds of digitised materials in the library, as well as an attempt of interdisciplinary presentation with additional educational value. The goal, content, methodology and the results of the pilot GIS application are presented in the article.

  2. Identification of new hematopoietic cell subsets with a polyclonal antibody library specific for neglected proteins.

    Directory of Open Access Journals (Sweden)

    Monica Moro

    Full Text Available The identification of new markers, the expression of which defines new phenotipically and functionally distinct cell subsets, is a main objective in cell biology. We have addressed the issue of identifying new cell specific markers with a reverse proteomic approach whereby approximately 1700 human open reading frames encoding proteins predicted to be transmembrane or secreted have been selected in silico for being poorly known, cloned and expressed in bacteria. These proteins have been purified and used to immunize mice with the aim of obtaining polyclonal antisera mostly specific for linear epitopes. Such a library, made of about 1600 different polyclonal antisera, has been obtained and screened by flow cytometry on cord blood derived CD34+CD45dim cells and on peripheral blood derived mature lymphocytes (PBLs. We identified three new proteins expressed by fractions of CD34+CD45dim cells and eight new proteins expressed by fractions of PBLs. Remarkably, we identified proteins the presence of which had not been demonstrated previously by transcriptomic analysis. From the functional point of view, looking at new proteins expressed on CD34+CD45dim cells, we identified one cell surface protein (MOSC-1 the expression of which on a minority of CD34+ progenitors marks those CD34+CD45dim cells that will go toward monocyte/granulocyte differentiation. In conclusion, we show a new way of looking at the membranome by assessing expression of generally neglected proteins with a library of polyclonal antisera, and in so doing we have identified new potential subsets of hematopoietic progenitors and of mature PBLs.

  3. A Critical Information Literacy Model: Library Leadership within the Curriculum

    Science.gov (United States)

    Swanson, Troy

    2011-01-01

    It is a time for a new model for teaching students to find, evaluate, and use information by drawing on critical pedagogy theory in the education literature. This critical information literacy model views the information world as a dynamic place where authors create knowledge for many reasons; it seeks to understand students as information users,…

  4. REAL-Select: full-length antibody display and library screening by surface capture on yeast cells.

    Science.gov (United States)

    Rhiel, Laura; Krah, Simon; Günther, Ralf; Becker, Stefan; Kolmar, Harald; Hock, Björn

    2014-01-01

    We describe a novel approach named REAL-Select for the non-covalent display of IgG-molecules on the surface of yeast cells for the purpose of antibody engineering and selection. It relies on the capture of secreted native full-length antibodies on the cell surface via binding to an externally immobilized ZZ domain, which tightly binds antibody Fc. It is beneficial for high-throughput screening of yeast-displayed IgG-libraries during antibody discovery and development. In a model experiment, antibody-displaying yeast cells were isolated from a 1:1,000,000 mixture with control cells confirming the maintenance of genotype-phenotype linkage. Antibodies with improved binding characteristics were obtained by affinity maturation using REAL-Select, demonstrating the ability of this system to display antibodies in their native form and to detect subtle changes in affinity by flow cytometry. The biotinylation of the cell surface followed by functionalization with a streptavidin-ZZ fusion protein is an approach that is independent of the genetic background of the antibody-producing host and therefore can be expected to be compatible with other eukaryotic expression hosts such as P. pastoris or mammalian cells.

  5. REAL-Select: full-length antibody display and library screening by surface capture on yeast cells.

    Directory of Open Access Journals (Sweden)

    Laura Rhiel

    Full Text Available We describe a novel approach named REAL-Select for the non-covalent display of IgG-molecules on the surface of yeast cells for the purpose of antibody engineering and selection. It relies on the capture of secreted native full-length antibodies on the cell surface via binding to an externally immobilized ZZ domain, which tightly binds antibody Fc. It is beneficial for high-throughput screening of yeast-displayed IgG-libraries during antibody discovery and development. In a model experiment, antibody-displaying yeast cells were isolated from a 1:1,000,000 mixture with control cells confirming the maintenance of genotype-phenotype linkage. Antibodies with improved binding characteristics were obtained by affinity maturation using REAL-Select, demonstrating the ability of this system to display antibodies in their native form and to detect subtle changes in affinity by flow cytometry. The biotinylation of the cell surface followed by functionalization with a streptavidin-ZZ fusion protein is an approach that is independent of the genetic background of the antibody-producing host and therefore can be expected to be compatible with other eukaryotic expression hosts such as P. pastoris or mammalian cells.

  6. Client value models provide a framework for rational library planning (or, phrasing the answer in the form of a question).

    Science.gov (United States)

    Van Moorsel, Guillaume

    2005-01-01

    Libraries often do not know how clients value their product/ service offerings. Yet at a time when the mounting costs for library support are increasingly difficult to justify to the parent institution, the library's ability to gauge the value of its offerings to clients has never been more critical. Client Value Models (CVMs) establish a common definition of value elements-or a "value vocabulary"-for libraries and their clients, thereby providing a basis upon which to make rational planning decisions regarding product/service acquisition and development. The CVM concept is borrowed from business and industry, but its application has a natural fit in libraries. This article offers a theoretical consideration and practical illustration of CVM application in libraries.

  7. Rapid isolation of antibody from a synthetic human antibody library by repeated fluorescence-activated cell sorting (FACS.

    Directory of Open Access Journals (Sweden)

    Sung Sun Yim

    Full Text Available Antibodies and their derivatives are the most important agents in therapeutics and diagnostics. Even after the significant progress in the technology for antibody screening from huge libraries, it takes a long time to isolate an antibody, which prevents a prompt action against the spread of a disease. Here, we report a new strategy for isolating desired antibodies from a combinatorial library in one day by repeated fluorescence-activated cell sorting (FACS. First, we constructed a library of synthetic human antibody in which single-chain variable fragment (scFv was expressed in the periplasm of Escherichia coli. After labeling the cells with fluorescent antigen probes, the highly fluorescent cells were sorted by using a high-speed cell sorter, and these cells were reused without regeneration in the next round of sorting. After repeating this sorting, the positive clones were completely enriched in several hours. Thus, we screened the library against three viral antigens, including the H1N1 influenza virus, Hepatitis B virus, and Foot-and-mouth disease virus. Finally, the potential antibody candidates, which show K(D values between 10 and 100 nM against the target antigens, could be successfully isolated even though the library was relatively small (∼ 10(6. These results show that repeated FACS screening without regeneration of the sorted cells can be a powerful method when a rapid response to a spreading disease is required.

  8. Construction of a Sequencing Library from Circulating Cell-Free DNA.

    Science.gov (United States)

    Fang, Nan; Löffert, Dirk; Akinci-Tolun, Rumeysa; Heitz, Katja; Wolf, Alexander

    2016-04-01

    Circulating DNA is cell-free DNA (cfDNA) in serum or plasma that can be used for non-invasive prenatal testing, as well as cancer diagnosis, prognosis, and stratification. High-throughput sequence analysis of the cfDNA with next-generation sequencing technologies has proven to be a highly sensitive and specific method in detecting and characterizing mutations in cancer and other diseases, as well as aneuploidy during pregnancy. This unit describes detailed procedures to extract circulating cfDNA from human serum and plasma and generate sequencing libraries from a wide concentration range of circulating DNA.

  9. PeptideBuilder: A simple Python library to generate model peptides

    Directory of Open Access Journals (Sweden)

    Matthew Z. Tien

    2013-05-01

    Full Text Available We present a simple Python library to construct models of polypeptides from scratch. The intended use case is the generation of peptide models with pre-specified backbone angles. For example, using our library, one can generate a model of a set of amino acids in a specific conformation using just a few lines of python code. We do not provide any tools for energy minimization or rotamer packing, since powerful tools are available for these purposes. Instead, we provide a simple Python interface that enables one to add residues to a peptide chain in any desired conformation. Bond angles and bond lengths can be manipulated if so desired, and reasonable values are used by default.

  10. Lessons Learned Model Checking an Industrial Communications Library

    Science.gov (United States)

    2005-09-01

    Lecture Notes in Computer Science [LNCS], volume 2057). Toronto, Canada, May 19-20, 2001. Berlin...Model Checking,” 128-147. Integrated Formal Methods: The 4th International Conference (IFM 2004) ( Lecture Notes in Computer Science [LNCS], volume...on Computer Aided Verification (CAV 1990). ( Lecture Notes in Computer Science [LNCS], volume 531). New Brunswick, NJ, June 18-21, 1990.

  11. Generation and selection of immunized Fab phage display library against human B cell lymphoma

    Institute of Scientific and Technical Information of China (English)

    Yongmei Shen; Xiaochun Yang; Ningzheng Dong; Xiaofang Xie; Xia Bai; Yizhen Shi

    2007-01-01

    The approval of using monoclonal antibodies as a targeted therapy in the management of patients with B cell lymphoma has led to new treatment options for this group of patients. Production of monoclonal antibodies by the traditional hybridoma technology is costly, and the resulting murine antibodies often have the disadvantage of triggering human anti-mouse antibody (HAMA) response. Therefore recombinant Fab antibodies generated by the phage display technology can be a suitable alternative in managing B cell lymphoma. In this study, we extracted total RNA from spleen cells of BALB/c mice immunized with human B lymphoma cells, and used RT-PCR to amplify cDNAs coding for the K light chains and Fd fragments of heavy chains. After appropriate restriction digests, these cDNA fragments were successively inserted into the phagemid vector pComb3H-SS to construct an immunized Fab phage display library. The diversity of the constructed library was approximately 1.94×107. Following five rounds of biopanning, soluble Fab antibodies were produced from positive clones identified by ELISA. From eight positive clones, FabC06, FabC21, FabC43 and FabC59 were selected for sequence analysis. At the level of amino acid sequences, the variable heavy domains (VH) and variable light domains (VL) were found to share 88-92% and 89-94% homology with sequences coded by the corresponding murine germline genes respectively. Furthermore, reactivity with membrane proteins of the B cell lymphoma was demonstrated by immunohistochemistry and western blotting. These immunized Fab antibodies may provide a valuable tool for further study of B cell lymphoma and could also contribute to the improvement of disease therapy.

  12. A Modelica-based Model Library for Building Energy and Control Systems

    Energy Technology Data Exchange (ETDEWEB)

    Wetter, Michael

    2009-04-07

    This paper describes an open-source library with component models for building energy and control systems that is based on Modelica, an equation-based objectoriented language that is well positioned to become the standard for modeling of dynamic systems in various industrial sectors. The library is currently developed to support computational science and engineering for innovative building energy and control systems. Early applications will include controls design and analysis, rapid prototyping to support innovation of new building systems and the use of models during operation for controls, fault detection and diagnostics. This paper discusses the motivation for selecting an equation-based object-oriented language. It presents the architecture of the library and explains how base models can be used to rapidly implement new models. To demonstrate the capability of analyzing novel energy and control systems, the paper closes with an example where we compare the dynamic performance of a conventional hydronic heating system with thermostatic radiator valves to an innovative heating system. In the new system, instead of a centralized circulation pump, each of the 18 radiators has a pump whose speed is controlled using a room temperature feedback loop, and the temperature of the boiler is controlled based on the speed of the radiator pump. All flows are computed by solving for the pressure distribution in the piping network, and the controls include continuous and discrete time controls.

  13. Construction and analysis of SSH cDNA library of human vascular endothelial cells related to gastrocarcinoma

    Institute of Scientific and Technical Information of China (English)

    Yong-Bo Liu; Zhao-Xia Wei; Li Li; Hang-Sheng Li; Hui Chen; Xiao-Wen Li

    2003-01-01

    AIM: To construct subtracted cDNA libraries of human vascular endothelial cells (VECs) related to gastrocarcinoma using suppression substractive hybridization (SSH) and to analyze cDNA libraries of gastrocarcinoma and VECs in Cancer Gene Anatomy Project (CGAP) database.METHODS: Human VECs related to gastric adenocarcinoma and corresponding normal tissue were separated by magnetic beads coupled with antibody CD31 (Dynabeads CD31). A few amount of total RNA were synthesized and amplified by SMARTTM PCR cDNA Synthesis Kit. Then, using SSH and T/A cloning techniques, cDNA fragments of differentially expressed genes in human VECs of gastric adenocarcinoma were inserted into JM109 bacteria. One hundred positive bacteria clones were randomly picked and identified by colony PCR method. To analyze cDNA libraries of gastrocarcinoma and VECs in CGAP database, the tools of Library Finder,cDNA xProfiler, Digital GENE Expression Displayer (DGED),and Digital Differential Display (DDD) were used.RESULTS: Forward and reverse subtraction cDNA libraries of human VECs related to gastrocarcinoma were constructed successfully with SSH and T/A cloning techniques. Analysis of CGAP database indicated that no appropriate library of VECs related to carcinoma was constructed.CONCLUSION: Construction of subtraction cDNA libraries of human VECs related to gastrocarcinoma was successful and necessary, which laid a foundation for screening and cloning new and specific genes of VECs related to gastrocardnoma.

  14. Effects of the EVCAM chemical validation library on differentiation using marker gene expression in lmouse embryonic stem cells

    Science.gov (United States)

    The adherent cell differentiation and cytotoxicity (ACDC) assay was used to profile the effects of the ECVAM EST validation chemical library (19 compounds) on J1 mouse embryonic stem cells (mESC). PCR-based TaqMan Low Density Arrays (TLDA) provided a high-content assessment of al...

  15. Nylon-3 copolymers that generate cell-adhesive surfaces identified by library screening.

    Science.gov (United States)

    Lee, Myung-Ryul; Stahl, Shannon S; Gellman, Samuel H; Masters, Kristyn S

    2009-11-25

    Polymers in the nylon-3 family contain subunits derived from beta-amino acids, which are linked to one another via amide bonds. Thus, the nylon-3 backbone is homologous to the alpha-amino acid-based backbone of proteins. This molecular-level homology suggests that nylon-3 materials might be intrinsically protein-mimetic. The experiments described here explore this prospect in the context of cell adhesion, with tissue engineering as a long-range goal. We have evaluated a small library of sequence-random nylon-3 copolymers for the ability to render surfaces attractive to NIH 3T3 fibroblast adhesion and spreading. Library screening was accomplished in a high-throughput, parallel mode via attachment of the copolymers in a two-dimensional array to a modified glass surface. Significant variations in fibroblast adhesion and spreading were observed as a function of nylon-3 subunit identity and proportion. Several of the nylon-3 copolymers supported cell adhesion and morphology that was comparable, or even superior, to that achieved on positive control substrates such as tissue culture polystyrene and collagen-coated glass. Moreover, studies conducted under serum-free conditions demonstrated that specific nylon-3 derivatives supported cell adhesion independently of serum protein adsorption. Although cell adhesion was diminished in the absence of serum, particular copolymers demonstrated an ability to support substantially greater cell adhesion than any of the other conditions, including the positive controls. The nylon-3 copolymers that were most effective at promoting adhesion to a modified glass surface proved also to be effective at promoting adhesion when attached to a PEG-based hydrogel, demonstrating the potential for these copolymers to be used in tissue engineering applications.

  16. Characterization of Leukemia-Inducing Genes Using a Proto-Oncogene/Homeobox Gene Retroviral Human cDNA Library in a Mouse In Vivo Model.

    Directory of Open Access Journals (Sweden)

    Su Hwa Jang

    Full Text Available The purpose of this research is to develop a method to screen a large number of potential driver mutations of acute myeloid leukemia (AML using a retroviral cDNA library and murine bone marrow transduction-transplantation system. As a proof-of-concept, murine bone marrow (BM cells were transduced with a retroviral cDNA library encoding well-characterized oncogenes and homeobox genes, and the virus-transduced cells were transplanted into lethally irradiated mice. The proto-oncogenes responsible for leukemia initiation were identified by PCR amplification of cDNA inserts from genomic DNA isolated from leukemic cells. In an initial screen of ten leukemic mice, the MYC proto-oncogene was detected in all the leukemic mice. Of ten leukemic mice, 3 (30% had MYC as the only transgene, and seven mice (70% had additional proto-oncogene inserts. We repeated the same experiment after removing MYC-related genes from the library to characterize additional leukemia-inducing gene combinations. Our second screen using the MYC-deleted proto-oncogene library confirmed MEIS1and the HOX family as cooperating oncogenes in leukemia pathogenesis. The model system we introduced in this study will be valuable in functionally screening novel combinations of genes for leukemogenic potential in vivo, and the system will help in the discovery of new targets for leukemia therapy.

  17. Characterization of Leukemia-Inducing Genes Using a Proto-Oncogene/Homeobox Gene Retroviral Human cDNA Library in a Mouse In Vivo Model.

    Science.gov (United States)

    Jang, Su Hwa; Lee, Sohyun; Chung, Hee Yong

    2015-01-01

    The purpose of this research is to develop a method to screen a large number of potential driver mutations of acute myeloid leukemia (AML) using a retroviral cDNA library and murine bone marrow transduction-transplantation system. As a proof-of-concept, murine bone marrow (BM) cells were transduced with a retroviral cDNA library encoding well-characterized oncogenes and homeobox genes, and the virus-transduced cells were transplanted into lethally irradiated mice. The proto-oncogenes responsible for leukemia initiation were identified by PCR amplification of cDNA inserts from genomic DNA isolated from leukemic cells. In an initial screen of ten leukemic mice, the MYC proto-oncogene was detected in all the leukemic mice. Of ten leukemic mice, 3 (30%) had MYC as the only transgene, and seven mice (70%) had additional proto-oncogene inserts. We repeated the same experiment after removing MYC-related genes from the library to characterize additional leukemia-inducing gene combinations. Our second screen using the MYC-deleted proto-oncogene library confirmed MEIS1and the HOX family as cooperating oncogenes in leukemia pathogenesis. The model system we introduced in this study will be valuable in functionally screening novel combinations of genes for leukemogenic potential in vivo, and the system will help in the discovery of new targets for leukemia therapy.

  18. Integration of Library Services in the System of Digital Libraries

    Science.gov (United States)

    Bezdushnyj, A. N.; Kalenov, N. E.; Kouriv, P. M.; Serebryakov, V. A.

    The article is devoted to the functional extension of the Integrated System of Information Resources of RAS (ISIR RAS - RFBR 99-07-90139 project). This extension (Library Subsystem) provides integration of library services in ISIR RAS electronic libraries system. Library Subsystem implements standard library services such as information about free and ordered copies of editions, creation of the library orders for edition etc. The Library Subsystem is an integrated solution; it's based on ISIR data model and technologies.

  19. An SSH library responsive to azadirachtin A constructed in Spodoptera litura Fabricius cell lines.

    Science.gov (United States)

    Yan, Chao; Zhang, Zhi-Xiang; Xu, Han-Hong

    2012-05-31

    The present study revealed differentially expressed genes responsive to azadirachtin A (Aza) in Spodoptera litura cell line through suppression subtractive hybridization. In the Aza-responsive SSH library, approximately 270 sequences represent 53 different identified genes encoding proteins with various predicted functions, and the percentages of the gene clusters were 26.09% (genetic information processing), 11.41% (cell growth and death), 7.07% (metabolism), 6.52% (signal transduction/transport) and 2.72% (immunity), respectively. Eleven clones homologous to identified genes were selected to be confirmed through quantitative real time polymerase chain reaction. Among the eleven clones validated, all but one transcript of lipase showed an increase in SL cell line collected from ETA, whereas the transcripts of other genes were lower in the SL cell line collected from ETA compared with that of UETA. These genes were considered to be related to the response of SL cell line to Aza. These will provide a new clue to uncover the molecular mechanisms of Aza acting on SL cell line.

  20. Identification of the determinants of 2-deoxyglucose sensitivity in cancer cells by shRNA library screening.

    Science.gov (United States)

    Kobayashi, Hiroki; Nishimura, Haruna; Matsumoto, Ken; Yoshida, Minoru

    2015-11-06

    Combining glycolytic inhibition with other anti-cancer therapies is a potential approach to treating cancer. In this context, we attempted to identify genes that determine sensitivity to 2-deoxyglucose (2DG), a glycolytic inhibitor, in cancer cells using pooled shRNA libraries targeting ∼15,000 genes. The screen revealed that COPB1 and ARCN1, which are essential in retrograde transport, as determinants of sensitivity to 2DG: silencing of COPB1 or ARCN1 expression sensitized cells to 2DG toxicity. To address the mechanism of potentiation of 2DG toxicity by inhibition of COPI-mediated transport, we focused on the role of lipolysis as an alternate source of energy upon inhibition of glycolysis. In the process of lipolysis, COPI-mediated transport is required for localization to lipid droplets of adipose triglyceride lipase (ATGL), a key enzyme that produces fatty acids from triacylglycerol as a substrate for β-oxidation. The ATGL inhibitor atglistatin potentiated 2DG toxicity, consistent with a model in which a defect in COPI-mediated transport of ATGL to lipid droplets inhibits energy supply, thereby sensitizing cells to glycolytic inhibition. Collectively, our data demonstrated that a defect in COPI-mediated transport or pharmacological inhibition of ATGL potentiates 2DG toxicity in cancer cells, possibly due to a reduction in the energy supply.

  1. [Empowering the family-center health model: the toy library as a health promotion platform].

    Science.gov (United States)

    Huang, Yu-Chu; Tsai, Yen-Chih

    2011-02-01

    Facing the lowest birth rates in its history, Taiwan is increasingly recognizing the centrality of children's healthcare needs to effective family care. The World Health Organization's goal of health for all emphasizes health promotion. However, little research attention has been given to how families actively promote personal health in everyday life. This article considers 'family-centric' healthcare, with a particular emphasis on children's health and well-being and the mother health promotion model. Authors employ a 'toy library' as the health promotion platform to build community interaction and empower the health enhancement process. Results suggested the following: 1. The fixed-point type toy library may be an effective tool in a health promotion strategy; 2. A model may be developed for rural institution agencies; 3. Cooperation may be facilitated using a medical service vehicle; 4. The love bag program can serve extended purposes. The authors found that the empowerment and growth of tribal mothers is a key element to facilitate the successful development of their children. Based on findings, the implementation of a toy library as the platform to build community-based health promotion model is suggested.

  2. Differentiated digital library evaluation in a hierarchical model stemming from its operational scope and complexity

    Institute of Scientific and Technical Information of China (English)

    WU; Jianhua; WANG; Zhaohui

    2009-01-01

    Digital libraries are complex systems and this brings difficulties for their evaluation.This paper proposes a hierarchical model to solve this problem,and puts the entangled matters into a clear-layered structure.Firstly,digital libraries(DLs thereafter)are classified into 5 groups in ascending gradations,i.e.mini DLs,small DLs,medium DLs,large DLs,and huge DLs by their scope of operation.Then,according to the characteristics of DLs at different operational scope and level of sophistication,they are further grouped into unitary DLs,union DLs and hybrid DLs accordingly.Based on this simulated structure,a hierarchical model for digital library evaluation is introduced,which evaluates DLs differentiatingly within a hierarchical scheme by using varying criteria based on their specific level of operational complexity such as at the micro-level,medium-level,and/or at the macro-level.Based on our careful examination and analysis of the current literature about DL evaluation system,an experiment is conducted by using the DL evaluation model along with its criteria for unitary DLs at micro-level.The main contents resulting from this evaluation experimentation and also those evaluation indicators and relevant issues of major concerns for DLs at medium-level and macro-level are also to be presented at some length.

  3. Nonlinear model reduction for dynamical systems using sparse sensor locations from learned libraries

    Science.gov (United States)

    Sargsyan, Syuzanna; Brunton, Steven L.; Kutz, J. Nathan

    2015-09-01

    We demonstrate the synthesis of sparse sampling and dimensionality reduction to characterize and model nonlinear dynamical systems over a range of bifurcation parameters. First, we construct modal libraries using the classical proper orthogonal decomposition in order to expose the dominant low-rank coherent structures. Here, libraries of the nonlinear terms are also constructed in order to take advantage of the discrete empirical interpolation method and projection that allows for the approximation of nonlinear terms from a sparse number of grid points. The selected grid points are shown to be effective sensing and measurement locations for characterizing the underlying dynamics, stability, and bifurcations of nonlinear dynamical systems. The use of empirical interpolation points and sparse representation facilitates a family of local reduced-order models for each physical regime, rather than a higher-order global model, which has the benefit of physical interpretability of energy transfer between coherent structures. The method advocated also allows for orders-of-magnitude improvement in computational speed and memory requirements. To illustrate the method, the discrete interpolation points and nonlinear modal libraries are used for sparse representation in order to classify and reconstruct the dynamic bifurcation regimes in the complex Ginzburg-Landau equation. It is also shown that point measurements of the nonlinearity are more effective than linear measurements when sensor noise is present.

  4. Development of 3D Female Breast Model Library for Bra Design

    Institute of Scientific and Technical Information of China (English)

    WANG Jian-ping; ZHANG Wei-yuan

    2006-01-01

    As the maturity of female costume concept as well as the social consuming activities, a new and higher requirement is imposed on female underwear design. Human body model is the basic of many applications on 3D garment CAD. This paper delivered a novel approach for modeling a human body which could be driven by related body dimensions to form a female breast model library based on the free form deformation technologies. The 3D female breast shape reserve has a strong potential of being used for bra design,bra fitting, virtual try-on and exhibition to meet "made-tomeasure" demand of the booming bra market in the world.

  5. Preliminary assessment of Geant4 HP models and cross section libraries by reactor criticality benchmark calculations

    DEFF Research Database (Denmark)

    Cai, Xiao-Xiao; Llamas-Jansa, Isabel; Mullet, Steven

    2013-01-01

    to reactor modelling. Before version 9.5, Geant4 HP thermal scattering model (i.e. the S(α; β) model ) supports only three bounded isotopes, namely, H in water and polyethylene, and C in graphite. Newly supported materials include D in heavy water, O and Be in beryllium oxide, H and Zr in zirconium hydride......, U and O in uranium dioxide, Al metal, Be metal, and Fe metal. The native HP cross section library G4NDL does not include data for elements with atomic number larger than 92. Therefore, transuranic elements, which have impacts for a realistic reactor, can not be simulated by the combination of the HP...

  6. Modulators of prostate cancer cell proliferation and viability identified by short-hairpin RNA library screening.

    Directory of Open Access Journals (Sweden)

    Kimberly Brown Dahlman

    Full Text Available There is significant need to identify novel prostate cancer drug targets because current hormone therapies eventually fail, leading to a drug-resistant and fatal disease termed castration-resistant prostate cancer. To functionally identify genes that, when silenced, decrease prostate cancer cell proliferation or induce cell death in combination with antiandrogens, we employed an RNA interference-based short hairpin RNA barcode screen in LNCaP human prostate cancer cells. We identified and validated four candidate genes (AKT1, PSMC1, STRADA, and TTK that impaired growth when silenced in androgen receptor positive prostate cancer cells and enhanced the antiproliferative effects of antiandrogens. Inhibition of AKT with a pharmacologic inhibitor also induced apoptosis when combined with antiandrogens, consistent with recent evidence for PI3K and AR pathway crosstalk in prostate cancer cells. Recovery of hairpins targeting a known prostate cancer pathway validates the utility of shRNA library screening in prostate cancer as a broad strategy to identify new candidate drug targets.

  7. Modulators of prostate cancer cell proliferation and viability identified by short-hairpin RNA library screening.

    Science.gov (United States)

    Dahlman, Kimberly Brown; Parker, Joel S; Shamu, Tambudzai; Hieronymus, Haley; Chapinski, Caren; Carver, Brett; Chang, Kenneth; Hannon, Gregory J; Sawyers, Charles L

    2012-01-01

    There is significant need to identify novel prostate cancer drug targets because current hormone therapies eventually fail, leading to a drug-resistant and fatal disease termed castration-resistant prostate cancer. To functionally identify genes that, when silenced, decrease prostate cancer cell proliferation or induce cell death in combination with antiandrogens, we employed an RNA interference-based short hairpin RNA barcode screen in LNCaP human prostate cancer cells. We identified and validated four candidate genes (AKT1, PSMC1, STRADA, and TTK) that impaired growth when silenced in androgen receptor positive prostate cancer cells and enhanced the antiproliferative effects of antiandrogens. Inhibition of AKT with a pharmacologic inhibitor also induced apoptosis when combined with antiandrogens, consistent with recent evidence for PI3K and AR pathway crosstalk in prostate cancer cells. Recovery of hairpins targeting a known prostate cancer pathway validates the utility of shRNA library screening in prostate cancer as a broad strategy to identify new candidate drug targets.

  8. A rotamer library to enable modeling and design of peptoid foldamers.

    Science.gov (United States)

    Renfrew, P Douglas; Craven, Timothy W; Butterfoss, Glenn L; Kirshenbaum, Kent; Bonneau, Richard

    2014-06-18

    Peptoids are a family of synthetic oligomers composed of N-substituted glycine units. Along with other "foldamer" systems, peptoid oligomer sequences can be predictably designed to form a variety of stable secondary structures. It is not yet evident if foldamer design can be extended to reliably create tertiary structure features that mimic more complex biomolecular folds and functions. Computational modeling and prediction of peptoid conformations will likely play a critical role in enabling complex biomimetic designs. We introduce a computational approach to provide accurate conformational and energetic parameters for peptoid side chains needed for successful modeling and design. We find that peptoids can be described by a "rotamer" treatment, similar to that established for proteins, in which the peptoid side chains display rotational isomerism to populate discrete regions of the conformational landscape. Because of the insufficient number of solved peptoid structures, we have calculated the relative energies of side-chain conformational states to provide a backbone-dependent (BBD) rotamer library for a set of 54 different peptoid side chains. We evaluated two rotamer library development methods that employ quantum mechanics (QM) and/or molecular mechanics (MM) energy calculations to identify side-chain rotamers. We show by comparison to experimental peptoid structures that both methods provide an accurate prediction of peptoid side chain placements in folded peptoid oligomers and at protein interfaces. We have incorporated our peptoid rotamer libraries into ROSETTA, a molecular design package previously validated in the context of protein design and structure prediction.

  9. Evaluation of usability of Spanish academic library web portals using a cognitive-emotional heuristic model

    Directory of Open Access Journals (Sweden)

    Daniel Muñoz-Egido

    2017-03-01

    Full Text Available In this paper a cognitive-emotional usability analysis model based on heuristics was used to analyze eighteen academic library web portals. Starting with a review of existing literature on the subject, a set of seventy-one heuristic criteria grouped into six aspects was designed, to which the metrics developed by SIRIUS were applied. The result of the evaluation reveals that the average usability of websites of university libraries analyzed stands at 72.30 over 100 with a standard deviation of 5.57. The aspects with the lowest scores were Attention and Long Term Memory and Learning, which were therefore approached less satisfactorily from the user’s point of view.

  10. ALL-Digital Baseband 65nm PLL/FPLL Clock Multiplier Using 10-Cell Library

    Science.gov (United States)

    Schuler, Robert L., Jr.; Wu, Qiong; Liu, Rui; Chen, Li; Madala, Shridhar

    2014-01-01

    PLLs for clock generation are essential for modern circuits, to generate specialized frequencies for many interfaces and high frequencies for chip internal operation. These circuits depend on analog circuits and careful tailoring for each new process, and making them fault tolerant is an incompletely solved problem. Until now, all digital PLLs have been restricted to sampled data DSP techniques and not available for the highest frequency baseband applications. This paper presents the design and preliminary evaluation of an all-digital baseband technique built entirely with an easily portable 10-cell digital library. The library is also described, as it aids in research and low volume design porting to new processes. The advantages of the digital approach are the wide variety of techniques available to give varying degrees of fault tolerance, and the simplicity of porting the design to new processes, even to exotic processes that may not have analog capability. The only tuning parameter is digital gate delay. An all-digital approach presents unique problems and standard analog loop stability design criteria cannot be directly used. Because of the quantization of frequency, there is effectively infinite gain for very small loop error feedback. The numerically controlled oscillator (NCO) based on a tapped delay line cannot be reliably updated while a pulse is active in the delay line, and ordinarily does not have enough frequency resolution for a low-jitter output.

  11. Methods for transforming and expression screening of filamentous fungal cells with a DNA library

    Energy Technology Data Exchange (ETDEWEB)

    Teter, Sarah; Lamsa, Michael; Cherry, Joel; Ward, Connie

    2015-06-02

    The present invention relates to methods for expression screening of filamentous fungal transformants, comprising: (a) isolating single colony transformants of a DNA library introduced into E. coli; (b) preparing DNA from each of the single colony E. coli transformants; (c) introducing a sample of each of the DNA preparations of step (b) into separate suspensions of protoplasts of a filamentous fungus to obtain transformants thereof, wherein each transformant contains one or more copies of an individual polynucleotide from the DNA library; (d) growing the individual filamentous fungal transformants of step (c) on selective growth medium, thereby permitting growth of the filamentous fungal transformants, while suppressing growth of untransformed filamentous fungi; and (e) measuring activity or a property of each polypeptide encoded by the individual polynucleotides. The present invention also relates to isolated polynucleotides encoding polypeptides of interest obtained by such methods, to nucleic acid constructs, expression vectors, and recombinant host cells comprising the isolated polynucleotides, and to methods of producing the polypeptides encoded by the isolated polynucleotides.

  12. A novel approach for immunization, screening and characterization of selected scFv libraries using membrane fractions of tumor cells.

    Science.gov (United States)

    Tur, Mehmet Kemal; Rothe, Achim; Huhn, Michael; Goerres, Ute; Klimka, Alexander; Stöcker, Michael; Engert, Andreas; Fischer, Rainerr; Finner, Ricarda; Barth, Stefan

    2003-04-01

    Isolation of cell-surface specific antibodies prerequisites the functional expressing of antigens on intact cells, which are maintained routinely by cell culturing. However, long-term culturing of tumor cells could alter their antigen expression patterns and stable fixation of whole cells is not guaranteed on plastic surfaces during stringent screening procedures. We prepared functional breast cancer cell-membrane fractions that express surface molecules in their native conformation. Specific binding phages were isolated from phage antibody libraries constructed from the spleen messenger RNA of mice immunized with breast cancer cell-membrane fractions. After negative selection on non-mammary carcinoma cells and four rounds of positive selection on breast carcinoma cell lines, phage antibodies were enriched that bound specifically to breast cancer cell lines as confirmed by phage enzyme linked immunosorbent assay (ELISA) using 96-well plates coated with breast cancer cell membranes. The isolated phage antibodies were highly specific for the breast cancer cell line 8701-BC but not on other carcinoma such as the Hodgkin-derived cell line L540Cy as demonstrated by ELISA and flow cytometry. This report describes a rapid and more versatile method for isolating antibody fragments compared to whole cell screening procedures. One single membrane preparation can be stored for at least 15 months at -80 degrees C and used to immunize mice or for screening of antibody libraries. The selection and screening strategy used should be generally applicable to identify novel cell-surface antigens and their corresponding antibodies.

  13. Characterizing and Modeling the Cost of Rework in a Library of Reusable Software Components

    Science.gov (United States)

    Basili, Victor R.; Condon, Steven E.; ElEmam, Khaled; Hendrick, Robert B.; Melo, Walcelio

    1997-01-01

    In this paper we characterize and model the cost of rework in a Component Factory (CF) organization. A CF is responsible for developing and packaging reusable software components. Data was collected on corrective maintenance activities for the Generalized Support Software reuse asset library located at the Flight Dynamics Division of NASA's GSFC. We then constructed a predictive model of the cost of rework using the C4.5 system for generating a logical classification model. The predictor variables for the model are measures of internal software product attributes. The model demonstrates good prediction accuracy, and can be used by managers to allocate resources for corrective maintenance activities. Furthermore, we used the model to generate proscriptive coding guidelines to improve programming, practices so that the cost of rework can be reduced in the future. The general approach we have used is applicable to other environments.

  14. Integrative characterization of germ cell-specific genes from mouse spermatocyte UniGene library

    Directory of Open Access Journals (Sweden)

    Eddy Edward M

    2007-07-01

    Full Text Available Abstract Background The primary regulator of spermatogenesis, a highly ordered and tightly regulated developmental process, is an intrinsic genetic program involving male germ cell-specific genes. Results We analyzed the mouse spermatocyte UniGene library containing 2155 gene-oriented transcript clusters. We predict that 11% of these genes are testis-specific and systematically identified 24 authentic genes specifically and abundantly expressed in the testis via in silico and in vitro approaches. Northern blot analysis disclosed various transcript characteristics, such as expression level, size and the presence of isoform. Expression analysis revealed developmentally regulated and stage-specific expression patterns in all of the genes. We further analyzed the genes at the protein and cellular levels. Transfection assays performed using GC-2 cells provided information on the cellular characteristics of the gene products. In addition, antibodies were generated against proteins encoded by some of the genes to facilitate their identification and characterization in spermatogenic cells and sperm. Our data suggest that a number of the gene products are implicated in transcriptional regulation, nuclear integrity, sperm structure and motility, and fertilization. In particular, we found for the first time that Mm.333010, predicted to contain a trypsin-like serine protease domain, is a sperm acrosomal protein. Conclusion We identify 24 authentic genes with spermatogenic cell-specific expression, and provide comprehensive information about the genes. Our findings establish a new basis for future investigation into molecular mechanisms underlying male reproduction.

  15. Screening of a specific peptide binding to esophageal squamous carcinoma cells from phage displayed peptide library.

    Science.gov (United States)

    Ma, Caixia; Li, Chunyan; Jiang, Dongliang; Gao, Xiaojie; Han, Juanjuan; Xu, Nan; Wu, Qiong; Nie, Guochao; Chen, Wei; Lin, Fenghuei; Hou, Yingchun

    2015-06-01

    To select a specifically binding peptide for imaging detection of human esophageal squamous cell carcinoma (ESCC), a phage-displayed 12-mer peptide library was used to screen the peptide that bind to ESCC cells specifically. After four rounds of bio-panning, the phage recovery rate gradually increased, and specific phage clones were effectively enriched. The 60 randomly selected phage clones were tested using cellular enzyme-linked immunosorbent assay (ELISA), and 41 phage clones were identified as positive clones with the over 2.10 ratio of absorbance higher than other clones, IRP and PBS controls. From the sequencing results of the positive clones, 14 peptide sequences were obtained and ESCP9 consensus sequence was identified as the peptide with best affinity to ESCC cells via competitive inhibition, fluorescence microscopy, and flow cytometry. The results indicate that the peptide ESCP9 can bind to ESCC cells specifically and sensitively, and it is a potential candidate to be developed as an useful molecule to the imaging detection and targeting therapy for ESCC.

  16. Selection of functional T cell receptor mutants from a yeast surface-display library.

    Science.gov (United States)

    Kieke, M C; Shusta, E V; Boder, E T; Teyton, L; Wittrup, K D; Kranz, D M

    1999-05-11

    The heterodimeric alphabeta T cell receptor (TCR) for antigen is the key determinant of T cell specificity. The structure of the TCR is very similar to that of antibodies, but the engineering of TCRs by directed evolution with combinatorial display libraries has not been accomplished to date. Here, we report that yeast surface display of a TCR was achieved only after the mutation of specific variable region residues. These residues are located in two regions of the TCR, at the interface of the alpha- and beta-chains and in the beta-chain framework region that is thought to be in proximity to the CD3 signal-transduction complex. The mutations are encoded naturally in many antibody variable regions, indicating specific functional differences that have not been appreciated between TCRs and antibodies. The identification of these residues provides an explanation for the inherent difficulties in the display of wild-type TCRs compared with antibodies. Yeast-displayed mutant TCRs bind specifically to the peptide/MHC antigen, enabling engineering of soluble T cell receptors as specific T cell antagonists. This strategy of random mutagenesis followed by selection for surface expression may be of general use in the directed evolution of other eukaryotic proteins that are refractory to display.

  17. Adiabatic quantum-flux-parametron cell library designed using a 10 kA cm-2 niobium fabrication process

    Science.gov (United States)

    Takeuchi, Naoki; Nagasawa, Shuichi; China, Fumihiro; Ando, Takumi; Hidaka, Mutsuo; Yamanashi, Yuki; Yoshikawa, Nobuyuki

    2017-03-01

    Adiabatic quantum-flux-parametron (AQFP) logic is an energy-efficient superconductor logic with zero static power consumption and very small switching energy. In this paper, we report a new AQFP cell library designed using the AIST 10 kA cm-2 Nb high-speed standard process (HSTP), which is a high-critical-current-density version of the AIST 2.5 kA cm-2 Nb standard process (STP2). Since the intrinsic damping of the Josephson junction (JJ) of HSTP is relatively strong, shunt resistors for JJs were removed and the energy efficiency improved significantly. Also, excitation transformers in the new cells were redesigned so that the cells can operate in a four-phase excitation mode. We described the detail of HSTP and the AQFP cell library designed using HSTP, and showed experimental results of cell test circuits.

  18. A Study of compatibility between Iranian digital libraries user interface and the elements of Ellis model of information seeking behavior

    Directory of Open Access Journals (Sweden)

    Yaghoub Norouzi

    2014-10-01

    Full Text Available The goal of this study is to evaluate the compatibility between Iranian digital libraries user interface and the elements of Ellis model of information seeking behavior. This study was performed using evaluation method with a checklist. This list is based on six features of Ellis model, "Starting", "Chaining", "Browsing", "Differentiating", "Monitoring" and "Extracting" and included 110 sub-components that have been developed using Delphi method. The population of this study included 5 library softwares: Azarakhsh, Simorgh, Papyrus, Payam and Parvan. Results showed that the average of scores of user interface of softwares is as follows: in Starting 99.6, Chaining 117.2, Browsing 29.6, Differentiating 53. 2, Monitoring 22.4 and Extracting 39. Among the softwares of digital libraries, according to the total score for elements of Ellis model (1080, Azarakhsh with 549 points is in the first rank and had the highest support for elements of Ellis model. It also became clear that Chaining with 586 points (%55 had the highest support in softwares of digital libraries. Also the elements of Chaining, Starting and Differentiating earned sequently the highest rank in softwares of digital libraries. Finally, testing research hypotheses with %95 confidence showed that among softwares of digital libraries there is no significant difference regarding the rate of support of elements of information seeking behavior of Ellis model.

  19. The Motivational Knowledge Management Model: proposal to apply it in the library sector

    Directory of Open Access Journals (Sweden)

    Daniel López-Fernández

    2016-12-01

    Full Text Available In professional environments, attention paid to aspects such as supervisory styles, interpersonal relationships and workers eagerness can have a positive impact on employee motivation and, consequently, on their performance and well-being. To achieve this, knowledge management models such as those presented here can be applied. This model generates diagnoses of motivation and recommendations for improvement, both systematically and scientifically. Consequently, it is especially useful for managers and human resource departments. The proposed model can be adapted to different kinds of professional groups, including those in library and documentation services. The suitability, reliability and usefulness of the proposed model have been empirically checked through case studies with 92 students and 166 professionals. The positive results allow us to conclude that the model is effective and useful for assessing and improving motivation.

  20.   Cell Penetrating Peptoids (CPPos: Synthesis of a Small Combinatorial Library by Using IRORI MiniKans

    Directory of Open Access Journals (Sweden)

    Dominik K. Kölmel

    2012-11-01

    Full Text Available Cell penetrating peptoids (CPPos are potent mimics of the corresponding cell penetrating peptides (CPPs. The synthesis of diverse oligomeric libraries that display a variety of backbone scaffolds and side-chain appendages are a very promising source of novel CPPos, which can be used to either target different cellular organelles or even different tissues and organs. In this study we established the submonomer-based solid phase synthesis of a “proof of principle” peptoid library in IRORI MiniKans to expand the amount for phenotypic high throughput screens of CPPos. The library consisting of tetrameric peptoids [oligo(N-alkylglycines] was established on Rink amide resin in a split and mix approach with hydrophilic and hydrophobic peptoid side chains. All CPPos of the presented library were labeled with rhodamine B to allow for the monitoring of cellular uptake by fluorescent confocal microscopy. Eventually, all the purified peptoids were subjected to live cell imaging to screen for CPPos with organelle specificity. While highly charged CPPos enter the cells by endocytosis with subsequent endosomal release, critical levels of lipophilicity allow other CPPos to specifically localize to mitochondria once a certain lipophilicity threshold is reached.

  1. High-throughput library screening identifies two novel NQO1 inducers in human lung cells.

    Science.gov (United States)

    Tan, Xiang-Lin; Marquardt, Gaby; Massimi, Aldo B; Shi, Miao; Han, Weiguo; Spivack, Simon D

    2012-03-01

    Many phytochemicals possess antioxidant and cancer-preventive properties, some putatively through antioxidant response element-mediated phase II metabolism, entailing mutagen/oxidant quenching. In our recent studies, however, most candidate phytochemical agents were not potent in inducing phase II genes in normal human lung cells. In this study, we applied a messenger RNA (mRNA)-specific gene expression-based high throughput in vitro screening approach to discover new, potent plant-derived phase II inducing chemopreventive agents. Primary normal human bronchial epithelial (NHBE) cells and immortalized human bronchial epithelial cells (HBECs) were exposed to 800 individual compounds in the MicroSource Natural Products Library. At a level achievable in humans by diet (1.0 μM), 2,3-dihydroxy-4-methoxy-4'-ethoxybenzophenone (DMEBP), triacetylresveratrol (TRES), ivermectin, sanguinarine sulfate, and daunorubicin induced reduced nicotinamide adenine dinucleotide phosphate:quinone oxidoreductase 1 (NQO1) mRNA and protein expression in NHBE cells. DMEBP and TRES were the most attractive agents as coupling potency and low toxicity for induction of NQO1 (mRNA level, ≥3- to 10.8-fold that of control; protein level, ≥ two- to fourfold that of control). Induction of glutathione S-transferase pi mRNA expression was modest, and none was apparent for glutathione S-transferase pi protein expression. Measurements of reactive oxygen species and glutathione/oxidized glutathione ratio showed an antioxidant effect for DMEBP, but no definite effect was found for TRES in NHBE cells. Exposure of NHBE cells to H(2)O(2) induced nuclear translocation of nuclear factor erythroid 2-related factor 2, but this translocation was not significantly inhibited by TRES and DMEBP. These studies show that potency and low toxicity may align for two potential NQO1-inducing agents, DMEBP and TRES.

  2. Determining Criteria to Measuring of the E-readiness Level of Academic Libraries Based of IUP Model

    OpenAIRE

    Yaghoub Norouzi; Ismaiel Jafarpour

    2012-01-01

    Preparation of a community or organization to take part and benefit from development of information and communication technology defined as e-readiness. The aim of this study was determining criteria to measuring of the e-readiness level of academic libraries. In this regard, the published literature in the field of e-readiness reviewed, and eventually the IUP (Information Utilization Potential) model cited as a reference. Then, using the Delphi method and library and information science ...

  3. Optimal screening of surface-displayed polypeptide libraries.

    Science.gov (United States)

    Boder, E T; Wittrup, K D

    1998-01-01

    Cell surface display of polypeptide libraries combined with flow cytometric cell sorting presents remarkable potential for enhancement of protein-ligand recognition properties. To maximize the utility of this approach, screening and purification conditions must be optimized to take full advantage of the quantitative feature of this technique. In particular, discrimination of improved library mutants from an excess of wild-type polypeptides is dependent upon an effective screening methodology. Fluorescence discrimination profiles for improved library mutants were derived from a mathematical model of expected cell fluorescence intensities for polypeptide libraries screened with fluorescent ligand. Profiles for surface-displayed libraries under equilibrium or kinetic screening conditions demonstrate distinct discrimination optima from which optimal equilibrium and kinetic screening parameters were derived. In addition, a statistical model of low cytometrically analyzed cell populations indicates the importance of low-stringency sorting followed by amplification through regrowth and resorting at increased stringency. This analysis further yields quantitative recommendations for cell-sorting stringency.

  4. Structural analysis and molecular modeling of two antitrichosanthin IgE clones from phage antibody library

    Institute of Scientific and Technical Information of China (English)

    LIZONGDONG; YURENYUAN; 等

    1997-01-01

    Recently we constructed a murine IgE phage surface display library and screened out two IgE (Fab) clones with specific binding activity to Trichosanthin (TCS).In this work,the Vε and Vκ genes of the two clones were sequenced and their putative germline gene usages were studied.On the basis of the known 3D structure of Trichosanthin and antibody,molecular modeling was carried out to study the antigen-antibody interaction.The possible antigenic determinant sites on the surface of TCS recognized by both the clones were analyzed,and the reaction forces between TCS and two Fab fragments were also analyzed respectively.

  5. Designing Collaborative Developmental Standards by Refactoring of the Earth Science Models, Libraries, Workflows and Frameworks.

    Science.gov (United States)

    Mirvis, E.; Iredell, M.

    2015-12-01

    The operational (OPS) NOAA National Centers for Environmental Prediction (NCEP) suite, traditionally, consist of a large set of multi- scale HPC models, workflows, scripts, tools and utilities, which are very much depending on the variety of the additional components. Namely, this suite utilizes a unique collection of the in-house developed 20+ shared libraries (NCEPLIBS), certain versions of the 3-rd party libraries (like netcdf, HDF, ESMF, jasper, xml etc.), HPC workflow tool within dedicated (sometimes even vendors' customized) HPC system homogeneous environment. This domain and site specific, accompanied with NCEP's product- driven large scale real-time data operations complicates NCEP collaborative development tremendously by reducing chances to replicate this OPS environment anywhere else. The NOAA/NCEP's Environmental Modeling Center (EMC) missions to develop and improve numerical weather, climate, hydrological and ocean prediction through the partnership with the research community. Realizing said difficulties, lately, EMC has been taken an innovative approach to improve flexibility of the HPC environment by building the elements and a foundation for NCEP OPS functionally equivalent environment (FEE), which can be used to ease the external interface constructs as well. Aiming to reduce turnaround time of the community code enhancements via Research-to-Operations (R2O) cycle, EMC developed and deployed several project sub-set standards that already paved the road to NCEP OPS implementation standards. In this topic we will discuss the EMC FEE for O2R requirements and approaches in collaborative standardization, including NCEPLIBS FEE and models code version control paired with the models' derived customized HPC modules and FEE footprints. We will share NCEP/EMC experience and potential in the refactoring of EMC development processes, legacy codes and in securing model source code quality standards by using combination of the Eclipse IDE, integrated with the

  6. Construction and selection of subtracted cDNA library of mouse hepatocarcinoma cell lines with different lymphatic metastasis potential

    Institute of Scientific and Technical Information of China (English)

    Li Hou; Jan-Wu Tang; Xiao-Nan Cui; Bo Wang; Bo Song; Lei Sun

    2004-01-01

    AIM: In order to elucidate the molecular mechanism of lymphatic metastasis of hepatocarcinoma, we detected the difference of gene expression between mouse hepatocarcinoma cell lines Hca-F and Hca-P with different lymphatic metastasis potential.METHODS: cDNA of Hca-F cells was used as a tester and cDNA of Hca-P cells was used as a driver. cDNAs highly expressed in Hca-F cells were isolated by the suppression subtractive hybridization (SSH) method. The isolated cDNA was cloned into T/A cloning vector. The ligation products were transformed into DH5 α competent cells. Individual clones were randomly selected and used for PCR amplification.Vector DNA from positive clones was isolated for sequencing.RESULTS: There were 800 positive clones in amplified subtracted cDNA library. Random analysis of 160 clones with PCR showed that 95% of the clones contained 100-700 bp inserts. Analysis of 20 sequenced cDNA clones randomly picked from the SSH library revealed 4 known genes (mouse heat shock protein 84 ku, DNA helicase, ribosomal protein S13 ,ethanol induced 6 gene) and 3 expressed sequence tags (ESTs). Four cDNAs showed no homology and presumably represent novel genes.CONCLUSION: A subtracted cDNA library of differentially expressed genes in mouse heptocarcinoma cell lines with different lymphatic metastasis potential was successfully constructed with SSH and T/A cloning techniques. The library is efficient and lays a solid foundation for searching new lymphatic metastasis related genes. The expression of mouse heat shock protein gene, DNA helicase and other 4 novel gene may be different between mouse heptocarcinoma cell lines with different lymphatic metastasis potential.

  7. A Cell-Based Approach for the Biosynthesis/Screening of Cyclic Peptide Libraries against Bacterial Toxins

    Energy Technology Data Exchange (ETDEWEB)

    Camarero, J A; Kimura, R; Woo, Y; Cantor, J; Steenblock, E

    2007-10-24

    Available methods for developing and screening small drug-like molecules able to knockout toxins or pathogenic microorganisms have some limitations. In order to be useful, these new methods must provide high-throughput analysis and identify specific binders in a short period of time. To meet this need, we are developing an approach that uses living cells to generate libraries of small biomolecules, which are then screened inside the cell for activity. Our group is using this new, combined approach to find highly specific ligands capable of disabling anthrax Lethal Factor (LF) as proof of principle. Key to our approach is the development of a method for the biosynthesis of libraries of cyclic peptides, and an efficient screening process that can be carried out inside the cell.

  8. Model-guided ligation strategy for optimal assembly of DNA libraries.

    Science.gov (United States)

    Ng, Daphne T W; Sarkar, Casim A

    2012-10-01

    DNA ligation is essential to many molecular biology manipulations, but this reaction is often carried out by following generic guidelines or by trial and error. Maximizing the desired ligation product is especially important in DNA library construction for directed evolution experiments since library diversity is directly affected by ligation efficiency. Here, we suggest that display vectors that rely on Type IIP restriction sites for cloning should be redesigned to utilize Type IIS restriction sites instead because ligation yield is significantly improved: we observed up to 15- and 2.6-fold increases in desired products for circular and linear ligation reactions, respectively. To guide ligation optimization more rationally, we developed an easily parameterized thermodynamic model that predicts product distributions based on input DNA concentrations and free energies of the ligation events. We applied this model to study ligation reactions using a ribosome display vector redesigned with Type IIS restriction sites (pRDV2). We computationally predicted and experimentally validated the relative abundance of various products in three-piece linear ligations as well as the extent of transformation from vector-insert circular ligations. Based on our results, we provide general insights into ligation and we outline guidelines for optimizing this reaction for both in vivo and in vitro display methodologies.

  9. SiRNA sequence model: redesign algorithm based on available genome-wide libraries.

    Science.gov (United States)

    Kozak, Karol

    2013-12-01

    The evolution of RNA interference (RNAi) and the development of technologies exploiting its biology have enabled scientists to rapidly examine the consequences of depleting a particular gene product in cells. Design tools have been developed based on experimental data to increase the knockdown efficiency of siRNAs. Not all siRNAs that are developed to a given target mRNA are equally effective. Currently available design algorithms take an accession, identify conserved regions among their transcript space, find accessible regions within the mRNA, design all possible siRNAs for these regions, filter them based on multi-scores thresholds, and then perform off-target filtration. These different criteria are used by commercial suppliers to produce siRNA genome-wide libraries for different organisms. In this article, we analyze existing siRNA design algorithms and evaluate weight of design parameters for libraries produced in the last decade. We proved that not all essential parameters are currently applied by siRNA vendors. Based on our evaluation results, we were able to suggest an siRNA sequence pattern. The findings in our study can be useful for commercial vendors improving the design of RNAi constructs, by addressing both the issue of potency and the issue of specificity.

  10. Microscopic nuclear models for astrophysics: The Brussels BRUSLIB nuclear library and beyond

    Science.gov (United States)

    Arnould, M.; Goriely, S.

    2006-10-01

    Astrophysics is in need of a broad variety of nuclear data. This concerns static ground state properties, characteristics of excited nuclei, spontaneous decay properties, or interactions of nuclei with (mainly) nucleons, α-particles or photons. A strong theoretical activity complementing laboratory efforts is also mandatory. A large variety of highly ‘exotic’ laboratory-unreachable nuclei are indeed involved in the astrophysics modelling. Even when laboratory-studied nuclei are considered, theory has very often to be called for. Mastering the huge volume of nuclear information and making it available in an accurate and usable form for incorporation into astrophysics models is clearly of pivotal importance. The recognition of this necessity has been the driving motivation for the construction of the Brussels library (BRUSLIB) of computed data of astrophysics relevance. It provides an extended information in tabular form on masses, nuclear level densities and partition functions, fission barriers, and thermonuclear reaction rates. In addition of the unprecedented broadness of its scope, BRUSLIB has the unique and most important feature of relying to the largest possible extent on global and coherent microscopic nuclear models. The models of this sort that we have developed to predict the basic properties of the nuclei and of their interactions are briefly reviewed. The content of the BRUSLIB library that relies on these models is described, as well as a user-friendly nuclear network generator (NETGEN) complementing BRUSLIB. Finally, an application of BRUSLIB and NETGEN to the p-process nucleosynthesis during He detonation in sub-Chandrasekhar CO white dwarfs is proposed.

  11. Microscopic nuclear models for astrophysics: The Brussels BRUSLIB nuclear library and beyond

    Energy Technology Data Exchange (ETDEWEB)

    Arnould, M. [Institut d Astronomie et d Astrophysique, CP 226, Universite Libre de Bruxelles, 1050 Brussels (Belgium)]. E-mail: marnould@astro.ulb.ac.be; Goriely, S. [Institut d Astronomie et d Astrophysique, CP 226, Universite Libre de Bruxelles, 1050 Brussels (Belgium)

    2006-10-17

    Astrophysics is in need of a broad variety of nuclear data. This concerns static ground state properties, characteristics of excited nuclei, spontaneous decay properties, or interactions of nuclei with (mainly) nucleons, {alpha}-particles or photons. A strong theoretical activity complementing laboratory efforts is also mandatory. A large variety of highly 'exotic' laboratory-unreachable nuclei are indeed involved in the astrophysics modelling. Even when laboratory-studied nuclei are considered, theory has very often to be called for. Mastering the huge volume of nuclear information and making it available in an accurate and usable form for incorporation into astrophysics models is clearly of pivotal importance. The recognition of this necessity has been the driving motivation for the construction of the Brussels library (BRUSLIB) of computed data of astrophysics relevance. It provides an extended information in tabular form on masses, nuclear level densities and partition functions, fission barriers, and thermonuclear reaction rates. In addition of the unprecedented broadness of its scope, BRUSLIB has the unique and most important feature of relying to the largest possible extent on global and coherent microscopic nuclear models. The models of this sort that we have developed to predict the basic properties of the nuclei and of their interactions are briefly reviewed. The content of the BRUSLIB library that relies on these models is described, as well as a user-friendly nuclear network generator (NETGEN) complementing BRUSLIB. Finally, an application of BRUSLIB and NETGEN to the p-process nucleosynthesis during He detonation in sub-Chandrasekhar CO white dwarfs is proposed.

  12. Induction of stable drug resistance in human breast cancer cells using a combinatorial zinc finger transcription factor library.

    Directory of Open Access Journals (Sweden)

    Jeongeun Lee

    Full Text Available Combinatorial libraries of artificial zinc-finger transcription factors (ZF-TFs provide a robust tool for inducing and understanding various functional components of the cancer phenotype. Herein, we utilized combinatorial ZF-TF library technology to better understand how breast cancer cells acquire resistance to fulvestrant, a clinically important anti-endocrine therapeutic agent. From a diverse collection of nearly 400,000 different ZF-TFs, we isolated six ZF-TF library members capable of inducing stable, long-term anti-endocrine drug-resistance in two independent estrogen receptor-positive breast cancer cell lines. Comparative gene expression profile analysis of the six different ZF-TF-transduced breast cancer cell lines revealed five distinct clusters of differentially expressed genes. One cluster was shared among all 6 ZF-TF-transduced cell lines and therefore constituted a common fulvestrant-resistant gene expression signature. Pathway enrichment-analysis of this common fulvestrant resistant signature also revealed significant overlap with gene sets associated with an estrogen receptor-negative-like state and with gene sets associated with drug resistance to different classes of breast cancer anti-endocrine therapeutic agents. Enrichment-analysis of the four remaining unique gene clusters revealed overlap with myb-regulated genes. Finally, we also demonstrated that the common fulvestrant-resistant signature is associated with poor prognosis by interrogating five independent, publicly available human breast cancer gene expression datasets. Our results demonstrate that artificial ZF-TF libraries can be used successfully to induce stable drug-resistance in human cancer cell lines and to identify a gene expression signature that is associated with a clinically relevant drug-resistance phenotype.

  13. How to Use Benchmark and Cross-section Studies to Improve Data Libraries and Models

    Science.gov (United States)

    Wagner, V.; Suchopár, M.; Vrzalová, J.; Chudoba, P.; Svoboda, O.; Tichý, P.; Krása, A.; Majerle, M.; Kugler, A.; Adam, J.; Baldin, A.; Furman, W.; Kadykov, M.; Solnyshkin, A.; Tsoupko-Sitnikov, S.; Tyutyunikov, S.; Vladimirovna, N.; Závorka, L.

    2016-06-01

    Improvements of the Monte Carlo transport codes and cross-section libraries are very important steps towards usage of the accelerator-driven transmutation systems. We have conducted a lot of benchmark experiments with different set-ups consisting of lead, natural uranium and moderator irradiated by relativistic protons and deuterons within framework of the collaboration “Energy and Transmutation of Radioactive Waste”. Unfortunately, the knowledge of the total or partial cross-sections of important reactions is insufficient. Due to this reason we have started extensive studies of different reaction cross-sections. We measure cross-sections of important neutron reactions by means of the quasi-monoenergetic neutron sources based on the cyclotrons at Nuclear Physics Institute in Řež and at The Svedberg Laboratory in Uppsala. Measurements of partial cross-sections of relativistic deuteron reactions were the second direction of our studies. The new results obtained during last years will be shown. Possible use of these data for improvement of libraries, models and benchmark studies will be discussed.

  14. Self-consistent 2-phase AGN torus models: SED library for observers

    CERN Document Server

    Siebenmorgen, Ralf; Efstathiou, Andreas

    2015-01-01

    We assume that dust near active galactic nuclei (AGN) is distributed in a torus-like geometry, which may be described by a clumpy medium or a homogeneous disk or as a combination of the two (i.e. a 2-phase medium). The dust particles considered are fluffy and have higher submillimeter emissivities than grains in the diffuse ISM. The dust-photon interaction is treated in a fully self-consistent three dimensional radiative transfer code. We provide an AGN library of spectral energy distributions (SEDs). Its purpose is to quickly obtain estimates of the basic parameters of the AGN, such as the intrinsic luminosity of the central source, the viewing angle, the inner radius, the volume filling factor and optical depth of the clouds, and the optical depth of the disk midplane, and to predict the flux at yet unobserved wavelengths. The procedure is simple and consists of finding an element in the library that matches the observations. We discuss the general properties of the models and in particular the 10mic. silic...

  15. A semi-empirical library of galaxy spectra for Gaia classification based on SDSS data and PÉGASE models

    Science.gov (United States)

    Tsalmantza, P.; Karampelas, A.; Kontizas, M.; Bailer-Jones, C. A. L.; Rocca-Volmerange, B.; Livanou, E.; Bellas-Velidis, I.; Kontizas, E.; Vallenari, A.

    2012-01-01

    Aims: This paper is the third in a series implementing a classification system for Gaia observations of unresolved galaxies. The system makes use of template galaxy spectra in order to determine spectral classes and estimate intrinsic astrophysical parameters. In previous work we used synthetic galaxy spectra produced by PÉGASE.2 code to simulate Gaia observations and to test the performance of support vector machine (SVM) classifiers and parametrizers. Here we produce a semi-empirical library of galaxy spectra by fitting SDSS spectra with the previously produced synthetic libraries. We present (1) the semi-empirical library of galaxy spectra; (2) a comparison between the observed and synthetic spectra; and (3) first results of classification and parametrization experiments with simulated Gaia spectrophotometry of this library. Methods: We use χ2-fitting to fit SDSS galaxy spectra with the synthetic library in order to construct a semi-empirical library of galaxy spectra in which (1) the real spectra are extended by the synthetic ones in order to cover the full wavelength range of Gaia; and (2) astrophysical parameters are assigned to the SDSS spectra by the best fitting synthetic spectrum. The SVM models were trained with and applied to semi-empirical spectra. Tests were performed for the classification of spectral types and the estimation of the most significant galaxy parameters (in particular redshift, mass to light ratio and star formation history). Results: We produce a semi-empirical library of 33 670 galaxy spectra covering the wavelength range 250 to 1050 nm at a sampling of 1 nm or less. Using the results of the fitting of the SDSS spectra with our synthetic library, we investigate the range of the input model parameters that produces spectra which are in good agreement with observations. In general the results are very good for the majority of the synthetic spectra of early type, spiral and irregular galaxies, while they reveal problems in the models

  16. A powerful combination: the use of positional scanning libraries and biometrical analysis to identify cross-reactive T cell epitopes.

    Science.gov (United States)

    Nino-Vasquez, J Javier; Allicotti, Gina; Borras, Eva; Wilson, Darcy B; Valmori, Danila; Simon, Richard; Martin, Roland; Pinilla, Clemencia

    2004-02-01

    Studies on the elucidation of the specificity of the T cell receptor (TCR) at the antigen and peptide level have contributed to the current understanding of T cell cross-reactivity. Historically, most studies of T cell specificity and degeneracy have relied on the determination of the effects on T cell recognition of amino acid changes at individual positions or MHC binding residues, and thus they have been limited to a small set of possible ligands. Synthetic combinatorial libraries (SCLs), and in particular positional scanning synthetic combinatorial libraries (PS-SCLs) represent collections of millions to trillions of peptides which allow the unbiased elucidation of T cell ligands that stimulate clones of both known and unknown specificity. PS-SCLs have been used successfully to study T cell recognition and to identify and optimize T cell clone (TCC) epitopes in infectious diseases, autoimmune disorders and tumor antigens. PS-SCL-based biometrical analysis represents a further refinement in the analysis of the data derived from the screening of a library with a TCC. It combines this data with information derived from protein sequence databases to identify natural peptide ligands. PS-SCL-based biometrical analysis provides a method for the determination of new microbial antigen and autoantigen sequences based solely on functional data rather than sequence homology or motifs, making the method ideally suited for the prediction and identification of both native and cross-reactive epitopes by virtue of its ability to integrate the examination of trillions of peptides in a systematic manner with all of the protein sequences in a given database. We review here the application of PS-SCLs and biometrical analysis to identify cross-reactive T cell epitopes, as well as the current efforts to refine this strategy.

  17. Modeling: driving fuel cells

    Directory of Open Access Journals (Sweden)

    Michael Francis

    2002-05-01

    Fuel cells were invented in 1839 by Sir William Grove, a Welsh judge and gentleman scientist, as a result of his experiments on the electrolysis of water. To put it simply, fuel cells are electrochemical devices that take hydrogen gas from fuel, combine it with oxygen from the air, and generate electricity and heat, with water as the only by-product.

  18. Variable epitope library carrying heavily mutated survivin-derived CTL epitope variants as a new class of efficient vaccine immunogen tested in a mouse model of breast cancer.

    Science.gov (United States)

    NoeDominguez-Romero, Allan; Zamora-Alvarado, Rubén; Servín-Blanco, Rodolfo; Pérez-Hernández, Erendira G; Castrillon-Rivera, Laura E; Munguia, Maria Elena; Acero, Gonzalo; Govezensky, Tzipe; Gevorkian, Goar; Manoutcharian, Karen

    2014-01-01

    The antigenic variability of tumor cells leading to dynamic changes in cancer epitope landscape along with escape from immune surveillance by down-regulating tumor antigen expression/presentation and immune tolerance are major obstacles for the design of effective vaccines. We have developed a novel concept for immunogen construction based on introduction of massive mutations within the epitopes targeting antigenically variable pathogens and diseases. Previously, we showed that these immunogens carrying large combinatorial libraries of mutated epitope variants, termed as variable epitope libraries (VELs), induce potent, broad and long lasting CD8+IFN-γ+ T-cell response as well as HIV-neutralizing antibodies. In this proof-of-concept study, we tested immunogenic properties and anti-tumor effects of the VELs bearing survivin-derived CTL epitope (GWEPDDNPI) variants in an aggressive metastatic mouse 4T1 breast tumor model. The constructed VELs had complexities of 10,500 and 8,000 individual members, generated as combinatorial M13 phage display and synthetic peptide libraries, respectively, with structural composition GWXPXDXPI, where X is any of 20 natural amino acids. Statistically significant tumor growth inhibition was observed in BALB/c mice immunized with the VELs in both prophylactic and therapeutic settings. Vaccinated mice developed epitope-specific spleen cell and CD8+ IFN-γ+ T-cell responses that recognize more than 50% of the panel of 87 mutated epitope variants, as demonstrated in T-cell proliferation assays and FACS analysis. These data indicate the feasibility of the application of this new class of immunogens based on VEL concept as an alternative approach for the development of molecular vaccines against cancer.

  19. Construction and sequence sampling of deep-coverage, large-insert BAC libraries for three model lepidopteran species

    Directory of Open Access Journals (Sweden)

    Zhao Shaying

    2009-06-01

    Full Text Available Abstract Background Manduca sexta, Heliothis virescens, and Heliconius erato represent three widely-used insect model species for genomic and fundamental studies in Lepidoptera. Large-insert BAC libraries of these insects are critical resources for many molecular studies, including physical mapping and genome sequencing, but not available to date. Results We report the construction and characterization of six large-insert BAC libraries for the three species and sampling sequence analysis of the genomes. The six BAC libraries were constructed with two restriction enzymes, two libraries for each species, and each has an average clone insert size ranging from 152–175 kb. We estimated that the genome coverage of each library ranged from 6–9 ×, with the two combined libraries of each species being equivalent to 13.0–16.3 × haploid genomes. The genome coverage, quality and utility of the libraries were further confirmed by library screening using 6~8 putative single-copy probes. To provide a first glimpse into these genomes, we sequenced and analyzed the BAC ends of ~200 clones randomly selected from the libraries of each species. The data revealed that the genomes are AT-rich, contain relatively small fractions of repeat elements with a majority belonging to the category of low complexity repeats, and are more abundant in retro-elements than DNA transposons. Among the species, the H. erato genome is somewhat more abundant in repeat elements and simple repeats than those of M. sexta and H. virescens. The BLAST analysis of the BAC end sequences suggested that the evolution of the three genomes is widely varied, with the genome of H. virescens being the most conserved as a typical lepidopteran, whereas both genomes of H. erato and M. sexta appear to have evolved significantly, resulting in a higher level of species- or evolutionary lineage-specific sequences. Conclusion The high-quality and large-insert BAC libraries of the insects, together

  20. De novo designed proteins from a library of artificial sequences function in Escherichia coli and enable cell growth.

    Directory of Open Access Journals (Sweden)

    Michael A Fisher

    Full Text Available A central challenge of synthetic biology is to enable the growth of living systems using parts that are not derived from nature, but designed and synthesized in the laboratory. As an initial step toward achieving this goal, we probed the ability of a collection of >10(6 de novo designed proteins to provide biological functions necessary to sustain cell growth. Our collection of proteins was drawn from a combinatorial library of 102-residue sequences, designed by binary patterning of polar and nonpolar residues to fold into stable 4-helix bundles. We probed the capacity of proteins from this library to function in vivo by testing their abilities to rescue 27 different knockout strains of Escherichia coli, each deleted for a conditionally essential gene. Four different strains--ΔserB, ΔgltA, ΔilvA, and Δfes--were rescued by specific sequences from our library. Further experiments demonstrated that a strain simultaneously deleted for all four genes was rescued by co-expression of four novel sequences. Thus, cells deleted for ∼0.1% of the E. coli genome (and ∼1% of the genes required for growth under nutrient-poor conditions can be sustained by sequences designed de novo.

  1. Conceptualising 'knowledge management' in the context of library and information science using the core/periphery model

    Directory of Open Access Journals (Sweden)

    O.B. Onyancha

    2009-04-01

    Full Text Available This study took cognisance of the fact that the term 'knowledge management' lacks a universally accepted definition, and consequently sought to describe the term using the most common co-occurring terms in knowledge management (KM literature as indexed in the Library, Information Science and Technology Abstracts (LISTA database. Using a variety of approaches and analytic techniques (e.g. core/periphery analysis and co-occurrence of words as subject terms, data were analysed using the core/periphery model and social networks through UCINET for Windows, TI, textSTAT and Bibexcel computer-aided software. The study identified the following as the compound terms with which KM co-occurs most frequently: information resources management, information science, information technology, information services, information retrieval, library science, management information systems and libraries. The core single subject terms with which KM can be defined include resources, technology, libraries, systems, services, retrieval, storage, data and computers. The article concludes by offering the library and information science (LIS professionals' general perception of KM based on their use of terms, through which KM can be defined within the context of LIS.

  2. Stochastic models of cell motility

    DEFF Research Database (Denmark)

    Gradinaru, Cristian

    2012-01-01

    Cell motility and migration are central to the development and maintenance of multicellular organisms, and errors during this process can lead to major diseases. Consequently, the mechanisms and phenomenology of cell motility are currently under intense study. In recent years, a new...... interdisciplinary field focusing on the study of biological processes at the nanoscale level, with a range of technological applications in medicine and biological research, has emerged. The work presented in this thesis is at the interface of cell biology, image processing, and stochastic modeling. The stochastic...... models introduced here are based on persistent random motion, which I apply to real-life studies of cell motility on flat and nanostructured surfaces. These models aim to predict the time-dependent position of cell centroids in a stochastic manner, and conversely determine directly from experimental...

  3. A Discrete Cell Migration Model

    Energy Technology Data Exchange (ETDEWEB)

    Nutaro, James J [ORNL; Kruse, Kara L [ORNL; Ward, Richard C [ORNL; O' Quinn, Elizabeth [Wofford College; Woerner, Matthew M [ORNL; Beckerman, Barbara G [ORNL

    2007-01-01

    Migration of vascular smooth muscle cells is a fundamental process in the development of intimal hyperplasia, a precursor to development of cardiovascular disease and a potential response to injury of an arterial wall. Boyden chamber experiments are used to quantify the motion of cell populations in response to a chemoattractant gradient (i.e., cell chemotaxis). We are developing a mathematical model of cell migration within the Boyden chamber, while simultaneously conducting experiments to obtain parameter values for the migration process. In the future, the model and parameters will be used as building blocks for a detailed model of the process that causes intimal hyperplasia. The cell migration model presented in this paper is based on the notion of a cell as a moving sensor that responds to an evolving chemoattractant gradient. We compare the results of our three-dimensional hybrid model with results from a one-dimensional continuum model. Some preliminary experimental data that is being used to refine the model is also presented.

  4. A novel peptide, selected from phage display library of random peptides, can efficiently target into human breast cancer cell

    Institute of Scientific and Technical Information of China (English)

    DONG Jian; LIU WeiQing; JIANG AiMei; ZHANG KeJian; CHEN MingQing

    2008-01-01

    To develop a targeting vector for breast cancer biotherapy, MDA-MB-231 cell, a human breast cancer cell line, was co-cultured with pC89 (9 aa) phage display library of random peptides. In multiple inde-pendent peptide-presenting phage screening trials, subtilisin was used as a protease to inactivate ex-tra-cellular phages. The internalized phages were collected by cell lysising and amplified in E. coli XLI-Blue. Through five rounds of selection, the peptide-presenting phages which could be internalized in MDA-MB-231 cells were isolated. A comparison was made between internalization capacities of pep-tide-presenting phages isolated from MDA-MB-231 cells and RGD-integrin binding phage by cocultur-ing them with other human tumor cell lines and normal cells. The nucleotide sequences of isolated peptide-presenting phages were then determined by DNA sequencing. To uncover whether phage coat protein or amino acid order was required for the character of the peptide to MDA-MB-231 cells, three peptides were synthesized. They are CASPSGALRSC, ASPSGALRS and CGVIFDHSVPC (the shifted sequence of CASPSGALRSC), and after coculturing them with different cell lines, their targeting ca-pacities to MDA-MB-231 cells were detected. These data suggested that the internalization process was highly selective, and capable of capturing a specific peptide from parent peptide variants. Moreover, the targeting internalization event of peptides was an amino acid sequence dependent manner. The results demonstrated the feasibility of using phage display library of random peptides to develop new targeting system for intracellular delivery of macromolecules, and the peptide we obtained might be modified as a targeting vector for breast cancer gene therapy.

  5. Simple model of cell crawling

    CERN Document Server

    Ohta, Takao; Sano, Masaki

    2015-01-01

    Based on symmetry consideration of migration and shape deformations, we formulate phenomenologically the dynamics of cell crawling in two dimensions. Forces are introduced to change the cell shape. The shape deformations induce migration of the cell on a substrate. For time-independent forces we show that not only a stationary motion but also a limit cycle oscillation of the migration velocity and the shape occurs as a result of nonlinear coupling between different deformation modes. Time-dependent forces are generated in a stochastic manner by utilizing the so-called coherence resonance of an excitable system. The present coarse-grained model has a flexibility that it can be applied, e.g., both to keratocyte cells and to Dictyostelium cells, which exhibit quite different dynamics from each other. The key factors for the motile behavior inherent in each cell type are identified in our model.

  6. Simple model of cell crawling

    Science.gov (United States)

    Ohta, T.; Tarama, M.; Sano, M.

    2016-04-01

    Based on symmetry consideration of migration and shape deformations, we formulate phenomenologically the dynamics of cell crawling in two dimensions. Forces are introduced to change the cell shape. The shape deformations induce migration of the cell on a substrate. For time-independent forces we show that not only a stationary motion but also a limit cycle oscillation of the migration velocity and the shape occurs as a result of nonlinear coupling between different deformation modes. Time-dependent forces are generated in a stochastic manner by utilizing the so-called coherence resonance of an excitable system. The present coarse-grained model has a flexibility that it can be applied, e.g., both to keratocyte cells and to Dictyostelium cells, which exhibit quite different dynamics from each other. The key factors for the motile behavior inherent in each cell type are identified in our model.

  7. Determining Criteria to Measuring of the E-readiness Level of Academic Libraries Based of IUP Model

    Directory of Open Access Journals (Sweden)

    Yaghoub Norouzi

    2012-03-01

    Full Text Available Preparation of a community or organization to take part and benefit from development of information and communication technology defined as e-readiness. The aim of this study was determining criteria to measuring of the e-readiness level of academic libraries. In this regard, the published literature in the field of e-readiness reviewed, and eventually the IUP (Information Utilization Potential model cited as a reference. Then, using the Delphi method and library and information science experts' help, e-readiness assessment indicators were presented for academic libraries. After customization and performing statistical analysis, indicators in the form of five basic dimensions (including the organization and management, human resources, data, information and communication technologies, and the relationship with the environment, including 82 sub-criteria confirmed. It was hope that the results of current research findings to bring the right tool for the custodians and researchers.

  8. A New Theoretical Library of High-resolution Stellar Spectra for UV-Optical Population Synthesis Models

    Science.gov (United States)

    Bertone, E.; Rodriguez-Merino, L.; Chavez, M.; Buzzoni, A.

    2003-06-01

    We present a new theoretical library of stellar spectra covering the wavelength interval from 850 to 7000 Å. The library consists of two datasets, one including the far UV-blue spectral region from 850 to 4750 Å at inverse spectral resolution R = 50000, and the latter spanning the range 3500-7000 Å at R = 500000. Both sets are based on the SYNTHE series of codes developed by R.L. Kurucz. For its comprehensive range of physical parameters (i.e. T[eff], logg and [M/H]) and higher spectral resolution, this is the most advanced spectral library currently available in the literature, and could profitably be used for population synthesis models and abundance studies of single stars.

  9. Identification of Bacterial Surface Antigens by Screening Peptide Phage Libraries Using Whole Bacteria Cell-Purified Antisera

    Science.gov (United States)

    Hu, Yun-Fei; Zhao, Dun; Yu, Xing-Long; Hu, Yu-Li; Li, Run-Cheng; Ge, Meng; Xu, Tian-Qi; Liu, Xiao-Bo; Liao, Hua-Yuan

    2017-01-01

    Bacterial surface proteins can be good vaccine candidates. In the present study, we used polyclonal antibodies purified with intact Erysipelothrix rhusiopthiae to screen phage-displayed random dodecapeptide and loop-constrained heptapeptide libraries, which led to the identification of mimotopes. Homology search of the mimotope sequences against E. rhusiopthiae-encoded ORF sequences revealed 14 new antigens that may localize on the surface of E. rhusiopthiae. When these putative surface proteins were used to immunize mice, 9/11 antigens induced protective immunity. Thus, we have demonstrated that a combination of using the whole bacterial cells to purify antibodies and using the phage-displayed peptide libraries to determine the antigen specificities of the antibodies can lead to the discovery of novel bacterial surface antigens. This can be a general approach for identifying surface antigens for other bacterial species. PMID:28184219

  10. Screening and Identification of a Novel Hepatocellular Carcinoma Cell Binding Peptide by Using a Phage Display Library

    Institute of Scientific and Technical Information of China (English)

    Xiaohua ZHU; Hua WU; Sha LUO; Zhiqun XIANYU; Dan ZHU

    2008-01-01

    The purpose of this study was to screen peptides that can specifically bind to human hepatocellular carcinoma (hHCC) cells using phage display of random peptide library in order to develope a peptide-based carrier for the diagnosis or therapy of hHCC. A peptide 12-mer phage display library was employed and 4 rounds of subtractive panning were performed using the hHCC cell line HepG2 as the target. After panning, the phages that specifically bound to and internalized in hHCC cells were selected. The selected phages demonstrated highly specific affinity to HepG2 cells analyzed by ELISA and immunofluorescence analysis. 57.3% of the selected phage clones displayed repeated sequence FLLEPHLMDTSM, and 4 amino acid residues, FLEP were extremely conservative. Based on the sequencing results, a 16-mer peptide (WH-16) was synthesized. The competitive ELISA showed that the binding of the phage clones displayed sequence FLLEPHLMDTSM to HepG2 cells was efficiently inhibited by WH-16. Our findings indicate that cellular binding of phage is mediated via its displayed peptide and the synthesized 16-mer peptide may have the potential to be a delivery Carrier in target diagnosis or therapy for hHCC.

  11. 图书馆移动服务模式研究%Research on the Mobile Service Model of Libraries

    Institute of Scientific and Technical Information of China (English)

    谢强; 牛现云; 赵娜; 高宏

    2012-01-01

    目前,图书馆移动服务主要实现方式为短(彩)信方式、基于浏览器的服务方式、客户端(移动)应用程序,服务内容主要有续借、预约等图书流通相关服务及信息公告、移动阅读等。但是无论从实现技术还是服务内容来看,服务模式都具有一定的局限性。因此,从发展角度及广泛适用性来看,图书馆移动服务模式应该包括延伸型图书馆移动服务、单一型图书馆移动服务、融合型图书馆移动服务。%At present,mobile services of libraries are mainly implemented by short(multimedia) message services,browser-based services and the client Application(APP).The mobile service content of libraries primarily includes book circulation services such as renew and booking,information bulletin,mobile reading,and so on.However,no matter in the view of implementation technique or service content,there are certain limitations to mobile service models.The mobile service model of libraries should be considered from development perspective,as well as extensive applicability,it should include extended type mobile services of libraries,single type mobile services of libraries,mobile services of libraries based on the network convergence.

  12. Approach to General Data Model of GIS Symbol Library and Symbol Library Data Exchange XML Schema%GIS符号库通用数据模型及其数据交换格式的研究

    Institute of Scientific and Technical Information of China (English)

    李青元; 苏德国; 李洪省; 刘皓晨; 孙立坚

    2009-01-01

    Symbol portrayal is an important function of GIS.Sharing symbolic information in different GIS platforms is neces-sary for GIS applications and users.This paper discusses the necessity,possibility and solution technique of sharing a symbol library in different GIS platforms.The route map is designed as follows:first,to set up a general data model for the symbol li-brary,then to design a standard exchange format,and finally to call on the GIS manufacturer to provide the interchange tools for their symbol library for the standard exchange format.This paper analyzes the general characteristics of GIS symbolic li-brary,gives a symbol library model and a draft of XML schema of the symbol library exchange format.

  13. Accessibility, Collaboration, and Staffing: Revamping the Model for Academic Library Video Collections

    Science.gov (United States)

    McGeary, Bryan James

    2015-01-01

    This column contains information on how students in graduate library and information science programs participate in a forum to discuss key issues they see in academic library public services, to envision what they feel librarians in public service have to offer to academia, to state their visions for the profession, or to tell of research that is…

  14. A Basic Hybrid Library Support Model to Distance Learners in Sudan

    Science.gov (United States)

    Abdelrahman, Omer Hassan

    2012-01-01

    Distance learning has flourished in Sudan during the last two decades; more and more higher education institutions offer distance learning programmes to off-campus students. Like on-campus students, distance learners should have access to appropriate library and information support services. They also have specific needs for library and…

  15. A Model for Managing 3D Printing Services in Academic Libraries

    Science.gov (United States)

    Scalfani, Vincent F.; Sahib, Josh

    2013-01-01

    The appearance of 3D printers in university libraries opens many opportunities for advancing outreach, teaching, and research programs. The University of Alabama (UA) Libraries recently adopted 3D printing technology and maintains an open access 3D Printing Studio. The Studio consists of a 3D printer, multiple 3D design workstations, and other…

  16. A Model for Assessing the Service Quality of University Library Websites

    Directory of Open Access Journals (Sweden)

    Chung-Min Wu

    2013-01-01

    Full Text Available Evaluating the e-service quality is essential to organizations. The future of e-libraries has a vital place in universities. Libraries need to use websites as means to provide access to information resources, news and events. The importance of assessing e-service quality of libraries is significant. Previous researchers have developed many methods for assessing e-service quality. However, most of them only focus on the independent hierarchical structure. In this paper, we would like to figure out the criteria for assessing the service quality of library websites from university students’ viewpoints. According to interdependent criteria, the analytic network process (ANP approach is employed to (i generate the priority weights of each criterion; (ii measure the service quality of university library websites. 12 web-based service criteria are identified according to 3144 university students’ viewpoints based on fuzzy Delphi method. On the basis of past studies, we divide 12 criteria into 3 perspectives, namely, system, efficiency, and information quality to measure the service quality of university library websites. On the basis of 3 perspectives and 12 important criteria, service quality of university library websites could be measured more effectively. Moreover, the practical application to measure the service quality of the old and new versions of one university library website presented in Section 5 is generic and also suitable to be exploited for Taiwanese universities.

  17. Library system of Italy

    Directory of Open Access Journals (Sweden)

    Nataša Gerbec

    2003-01-01

    Full Text Available In the European extent, Italy is the cradle of libraries and library sciences. In the past, Italian national public libraries played an important role through their vast book treasury. But only during the last thirty years have public libraries been developed following the Anglo-American public library model. Italy does not have any uniform or general legislation concerning libraries. On the state level, this area is regulated by some separate acts, while on the regional level there is a collection of various acts and regulations. Libraries are not strictly divided into general categories. It is required that the professionals engaged in Italian libraries should have secondary or university education. The level of their professional tasks depends on the type of library and its capacity. The competency for the development in the field of librarianship is assigned to The Ministry of Cultural and Environment Heritage as well as to its subordinate institutions (Central Institute for the Union catalogue of Italian Libraries and for Bibliographic Information, Central Institute for Book Pathology, Observatory for International Libraries Programmes.

  18. Design and modeling of an on-silicon spiral inductor library using improved EM simulations

    Science.gov (United States)

    Goni-Iturri, A.; Khemchandani, S. L.; del Pino, F. J.; Garcia, J.; Gonzalez, B.; Hernandez, A.

    2005-06-01

    This paper deals with the design and modeling of integrated spiral inductors for RF applications by means of a general purpose Electromagnetic (EM) simulator. These tools allow optimizing flexibly the inductor layout structure. The inductor performance can be obtained by using a three-dimensional design tool or a two-dimensional one. Planar 2-D or so called 2.5-Ds simulators are faster and accept complex coil geometries. We have used one of these simulators, the Advanced Design System planar EM simulator, Momentum, from Agilent. The inductor quality factor (Q) is limited, among other phenomena, by the series resistance of the metal traces and the substrate losses. Therefore the simulator requires an accurate set up of the process and simulator parameters and a correct algorithm to model metal thickness to rely on simulation results. In this paper we analyze and compare these different approaches. A high-quality factor inductor library on a 0.35 μm SiGe technology at 5 GHz is also designed in this work using the proper simulator set up. Nine of the inductors have been fabricated and measured to test the simulator reliability. Measurements taken over a frequency range from 500 MHz to 10GHz show a good agreement with 2.5-EM simulations.

  19. A distributed, collaborative, structuring model for a clinical-guideline digital-library.

    Science.gov (United States)

    Shahar, Yuval; Shalom, Erez; Mayaffit, Alon; Young, Ohad; Galperin, Maya; Martins, Susana; Goldstein, Mary

    2003-01-01

    The Digital Electronic Guideline Library (DeGeL) is a Web-based framework and a set of distributed tools that facilitate gradual conversion of clinical guidelines from free text, through semi-structured text, to a fully structured, executable representation. Thus, guidelines exist in a hybrid, multiple-format representation The three formats support increasingly sophisticated computational tasks. The tools perform semantic markup, classification, search, and browsing, and support computational modules that we are developing, for run-time application and retrospective quality assessment. We describe the DeGeL architecture and its collaborative-authoring authorization model, which is based on (1) multiple medical-specialty authoring groups, each including a group manager who controls group authorizations, and (2) a hierarchical authorization model based on the different functions involved in the hybrid guideline-specification process. We have implemented the core modules of the DeGeL architecture and demonstrated distributed markup and retrieval using the knowledge roles of two guidelines ontologies (Asbru and GEM). We are currently evaluating several of the DeGeL tools.

  20. Model cell membranes

    DEFF Research Database (Denmark)

    Günther-Pomorski, Thomas; Nylander, Tommy; Cardenas Gomez, Marite

    2014-01-01

    The high complexity of biological membranes has motivated the development and application of a wide range of model membrane systems to study biochemical and biophysical aspects of membranes in situ under well defined conditions. The aim is to provide fundamental understanding of processes control...

  1. Selected Aspects Of Modelling Of Non-Linear Behaviour Of Concrete During Tensile Test Using Multiplas Library

    Directory of Open Access Journals (Sweden)

    Hokeš Filip

    2015-12-01

    Full Text Available The subject of this paper is to describe some of the aspects manifesting in the use of the elastoplastic material model library multiPlas, which was developed to support non-linear computations in the ANSYS system. The text focuses on the analysis of numerical simulations of a virtual tension test in several case studies, thereby the text endeavours to describe the problems connected with modelling non-linear behaviour of concrete in a tensile area.

  2. Library Automation

    OpenAIRE

    Dhakne, B. N.; Giri, V. V.; Waghmode, S. S.

    2010-01-01

    New technologies library provides several new materials, media and mode of storing and communicating the information. Library Automation reduces the drudgery of repeated manual efforts in library routine. By use of library automation collection, Storage, Administration, Processing, Preservation and communication etc.

  3. Physical models of cell motility

    CERN Document Server

    2016-01-01

    This book surveys the most recent advances in physics-inspired cell movement models. This synergetic, cross-disciplinary effort to increase the fidelity of computational algorithms will lead to a better understanding of the complex biomechanics of cell movement, and stimulate progress in research on related active matter systems, from suspensions of bacteria and synthetic swimmers to cell tissues and cytoskeleton.Cell motility and collective motion are among the most important themes in biology and statistical physics of out-of-equilibrium systems, and crucial for morphogenesis, wound healing, and immune response in eukaryotic organisms. It is also relevant for the development of effective treatment strategies for diseases such as cancer, and for the design of bioactive surfaces for cell sorting and manipulation. Substrate-based cell motility is, however, a very complex process as regulatory pathways and physical force generation mechanisms are intertwined. To understand the interplay between adhesion, force ...

  4. The Modeling Library of Eavesdropping Methods in Quantum Cryptography Protocols by Model Checking

    Science.gov (United States)

    Yang, Fan; Yang, Guowu; Hao, Yujie

    2016-07-01

    The most crucial issue of quantum cryptography protocols is its security. There exists many ways to attack the quantum communication process. In this paper, we present a model checking method for modeling the eavesdropping in quantum information protocols. So when the security properties of a certain protocol are needed to be verified, we can directly use the models which are already built. Here we adopt the probabilistic model checking tool—PRISM to model these attack methods. The verification results show that the detection rate of eavesdropping is approximately close to 1 when enough photons are transmitted.

  5. 100 GHz Demonstrations Based on the Single-Flux-Quantum Cell Library for the 10 kA/cm2 Nb Multi-Layer Process

    Science.gov (United States)

    Yamanashi, Yuki; Kainuma, Toshiki; Yoshikawa, Nobuyuki; Kataeva, Irina; Akaike, Hiroyuki; Fujimaki, Akira; Tanaka, Masamitsu; Takagi, Naofumi; Nagasawa, Shuichi; Hidaka, Mutsuo

    A single flux quantum (SFQ) logic cell library has been developed for the 10kA/cm2 Nb multi-layer fabrication process to efficiently design large-scale SFQ digital circuits. In the new cell library, the critical current density of Josephson junctions is increased from 2.5kA/cm2 to 10kA/cm2 compared to our conventional cell library, and the McCumber-Stwart parameter of each Josephson junction is increased to 2 in order to increase the circuit operation speed. More than 300 cells have been designed, including fundamental logic cells and wiring cells for passive interconnects. We have measured all cells and confirmed they stably operate with wide operating margins. On-chip high-speed test of the toggle flip-flop (TFF) cell has been performed by measuring the input and output voltages. The TFF cell at the input frequency of up to 400GHz was confirmed to operate correctly. Also, several fundamental digital circuits, a 4-bit concurrent-flow shift register and a bit-serial adder have been designed using the new cell library, and the correct operations of the circuits have been demonstrated at high clock frequencies of more than 100GHz.

  6. Construction of a hepatic stellate cells subtracted cDNA library of differentially expressed genes in normal mice and mice with Schistosomiasis japonica*

    OpenAIRE

    2005-01-01

    To construct a hepatic stellate cells (HSCs) subtracted cDNA library to find differentially expressed genes in normal mice and mice infected with Schistosoma japonicum (S. japonicum). Suppression subtractive hybridization (SSH) was used. The cDNA fragments of normal mouse were compared to those of schistosoma-infected mice to find differentially expressed genes. Then differentially expressed cDNA fragments were directly inserted into T/A cloning vector to set up the subtractive library. Ampli...

  7. Modelling and Model-Based-Designed PID Control of the JT-60SA Cryogenic System Using the Simcryogenics Library

    Science.gov (United States)

    Bonne, F.; Bonnay, P.; Hoa, C.; Mahoudeau, G.; Rousset, B.

    2017-02-01

    This papers deals with the Japan Torus-60 Super Advanced fusion experiment JT-60SA cryogenic system. A presentation of the JT-60SA cryogenic system model, from 300K to 4.4K -using the Matlab/Simulink/Simscape Simcryogenics library- will be given. As a first validation of our modelling strategy, the obtained operating point will be compared with the one obtained from HYSYS simulations. In the JT60-SA tokamak, pulsed heat loads are expected to be coming from the plasma and must be handled properly, using both appropriate refrigerator architecture and appropriate control model, to smooth the heat load. This paper presents model-based designed PID control schemes to control the helium mass inside the phase separator. The helium mass inside the phase separator as been chosen to be the variable of interest in the phase separator since it is independent of the pressure which can vary from 1 bar to 1.8 bar during load smoothing. Dynamics simulations will be shown to assess the legitimacy of the proposed strategy. This work is partially supported through the French National Research Agency (ANR), task agreement ANR-13-SEED-0005.

  8. Epigenetic Library Screen Identifies Abexinostat as Novel Regulator of Adipocytic and Osteoblastic Differentiation of Human Skeletal (Mesenchymal) Stem Cells

    DEFF Research Database (Denmark)

    Ali; Hamam; Alfayez;

    2016-01-01

    The epigenetic mechanisms promoting lineage-specific commitment of human skeletal (mesenchymal or stromal) stem cells (hMSCs) into adipocytes or osteoblasts are still not fully understood. Herein, we performed an epigenetic library functional screen and identified several novel compounds, including...... abexinostat, which promoted adipocytic and osteoblastic differentiation of hMSCs. Using gene expression microarrays, chromatin immunoprecipitation for H3K9Ac combined with high-throughput DNA sequencing (ChIP-seq), and bioinformatics, we identified several key genes involved in regulating stem cell...... or stromal) stem cells (hMSCs). These data provide new insight into the understanding of the relationship between the epigenetic effect of histone deacetylase inhibitors, transcription factors, and differentiation pathways controlling adipocyte and osteoblast differentiation of hMSCs. Manipulating...

  9. Experience in Computer-Assisted XML-Based Modelling in the Context of Libraries

    CERN Document Server

    Niinimäki, M

    2003-01-01

    In this paper, we introduce a software called Meta Data Visualisation (MDV) that (i) assists the user with a graphical user interface in the creation of his specific document types, (ii) creates a database according to these document types, (iii) allows the user to browse the database, and (iv) uses native XML presentation of the data in order to allow queries or data to be exported to other XML-based systems. We illustrate the use of MDV and XML modelling using library-related examples to build a bibliographic database. In our opinion, creating document type descriptions corresponds to conceptual and logical database design in a database design process. We consider that this design can be supported with a suitable set of tools that help the designer concentrate on conceptual issues instead of implementation issues. Our hypothesis is that using the methodology presented in this paper we can create XML databases that are useful and relevant, and with which MDV works as a user interface.

  10. Mathematical Model for Photovoltaic Cells

    Directory of Open Access Journals (Sweden)

    Wafaa ABD EL-BASIT

    2013-11-01

    Full Text Available The study of photovoltaic systems in an efficient manner requires a precise knowledge of the (I-V and (P-V characteristic curves of photovoltaic modules. So, the aim of the present paper is to estimate such characteristics based on different operating conditions. In this concern, a simple one diode mathematical model was implemented using MATLAB script. The output characteristics of PV cell depend on the environmental conditions. For any solar cell, the model parameters are function of the irradiance and the temperature values of the site where the panel is placed. In this paper, the numerical values of the equivalent circuit parameters are generated by the program. As well, the dependence of the cells electrical parameters are analyzed under the influence of different irradiance and temperature levels. The variation of slopes of the (I–V curves of a cell at short-circuit and open-circuit conditions with intensity of illumination in small span of intensity and different temperature levels have been applied to determine the cell parameters, shunt resistance, series resistance. The results show that the efficiency of solar cells has an inverse relationship with temperature, irradiance levels are affected by the change of the photo-generation current and the series resistance in the single diode model.

  11. The Study of Analytical Model of Library Electronic Resources Usage-A Case of Medical Electronic Resources

    Directory of Open Access Journals (Sweden)

    Chung-Yen Yu

    2014-10-01

    Full Text Available With the advents of internet, the importance of electronic resources is growing. Due to the increasing expensiveness of electronic resources, university libraries normally received budgets from parent institutions annually. They necessarily applied effective and systematic methods for decision making in electronic resources purchase or re-subscription. However, there are some difficulties in practices: First of all, libraries are unable to receive user records; second, the COUNTER statistics does not include details about users and their affiliation. As a result, one cannot conduct advanced user analysis based on the usage of users, institutions, and departments. To overcome the difficulties, this study presents a feasible model to analyze electronic resource usage effectively and flexibly. We set up a proxy server to collect actual usage raw data. By analyzing items in internet browsing records, associated with original library automatic system, this study aims at exploring how to use effective ways to analyze big data of website log data. We also propose the process of how original data to be transformed, cleared, integrated, and demonstrated. This study adopted a medical university library and its subscription of medical electronic resources as a case. Our data analysis includes (1 year of subscription,(2 title of journal, (3 affiliation, (4 subjects, and (5 specific journal requirements, etc. The findings of the study are contributed to obtain further understanding in policy making and user behavior analysis. The integrated data provides multiple applications in informatics research, information behavior, bibliomining, presenting diverse views and extended issues for further discussion.

  12. A Scalable Cloud Library Empowering Big Data Management, Diagnosis, and Visualization of Cloud-Resolving Models

    Science.gov (United States)

    Zhou, S.; Tao, W. K.; Li, X.; Matsui, T.; Sun, X. H.; Yang, X.

    2015-12-01

    A cloud-resolving model (CRM) is an atmospheric numerical model that can numerically resolve clouds and cloud systems at 0.25~5km horizontal grid spacings. The main advantage of the CRM is that it can allow explicit interactive processes between microphysics, radiation, turbulence, surface, and aerosols without subgrid cloud fraction, overlapping and convective parameterization. Because of their fine resolution and complex physical processes, it is challenging for the CRM community to i) visualize/inter-compare CRM simulations, ii) diagnose key processes for cloud-precipitation formation and intensity, and iii) evaluate against NASA's field campaign data and L1/L2 satellite data products due to large data volume (~10TB) and complexity of CRM's physical processes. We have been building the Super Cloud Library (SCL) upon a Hadoop framework, capable of CRM database management, distribution, visualization, subsetting, and evaluation in a scalable way. The current SCL capability includes (1) A SCL data model enables various CRM simulation outputs in NetCDF, including the NASA-Unified Weather Research and Forecasting (NU-WRF) and Goddard Cumulus Ensemble (GCE) model, to be accessed and processed by Hadoop, (2) A parallel NetCDF-to-CSV converter supports NU-WRF and GCE model outputs, (3) A technique visualizes Hadoop-resident data with IDL, (4) A technique subsets Hadoop-resident data, compliant to the SCL data model, with HIVE or Impala via HUE's Web interface, (5) A prototype enables a Hadoop MapReduce application to dynamically access and process data residing in a parallel file system, PVFS2 or CephFS, where high performance computing (HPC) simulation outputs such as NU-WRF's and GCE's are located. We are testing Apache Spark to speed up SCL data processing and analysis.With the SCL capabilities, SCL users can conduct large-domain on-demand tasks without downloading voluminous CRM datasets and various observations from NASA Field Campaigns and Satellite data to a

  13. Homology modelling and bivalent single-chain Fv construction of anti-HepG2 single-chain immunoglobulin Fv fragments from a phage display library

    Indian Academy of Sciences (India)

    Ming Ni; Bing Yu; Y U Huang; Zhenjie Tang; Ping Lei; Xin Shen; Wei Xin; Huifen Zhu; Guanxin Shen

    2008-12-01

    We prepared single-chain immunoglobulin Fv fragments (scFv) SLH10 specific for the HepG2 cell line after biopanning from a large human-naïve phage display library (Griffin. 1 Library). The three-dimensional (3D) structure of SLH10 was modelled by the Insight II molecule simulation software. The structure was refined using the molecular dynamics method. The structures with the least steric clashes and lowest energy were determined finally. The optimized structures of heavy (VH) and light (VL) variable chains of SLH10 scFv were obtained. Then SLH10 bivalent single-chain Fv (BsFv) was constructed that would be suitable for high-affinity targeting. SLH10 BsFv was generated by linking scFvs together and identified by sequencing. Its expression products were confirmed by western blot analysis. The relative molecular masses of scFv and BsFv were approximately 30 kDa and 60 kDa, respectively. Flow cytometry revealed that SLH10 BsFv bound the selected cell lines with greater signal intensity than the parental scFv. The improved antigen binding of SLH10 BsFv may be useful for immunodiagnostics or targeted gene therapy for liver cancer.

  14. Amino acid alphabet size in protein evolution experiments: better to search a small library thoroughly or a large library sparsely?

    Science.gov (United States)

    Muñoz, Enrique; Deem, Michael W

    2008-05-01

    We compare the results obtained from searching a smaller library thoroughly versus searching a more diverse, larger library sparsely. We study protein evolution with reduced amino acid alphabets, by simulating directed evolution experiments at three different alphabet sizes: 20, 5 and 2. We employ a physical model for evolution, the generalized NK model, that has proved successful in modeling protein evolution, antibody evolution and T-cell selection. We find that antibodies with higher affinity are found by searching a library with a larger alphabet sparsely than by searching a smaller library thoroughly, even with well-designed reduced libraries. We also find ranked amino acid usage frequencies in agreement with observations of the CDR-H3 variable region of human antibodies.

  15. An anti-tumor protein produced by Trichinella spiralis and identified by screening a T7 phage display library, induces apoptosis in human hepatoma H7402 cells

    Science.gov (United States)

    Trichinella spiralis infection confers effective resistance to tumor cell expansion. In this study, a T7 phage cDNA display library was constructed to express genes encoded by T. spiralis. Organic phase multi-cell screening was used to sort through candidate proteins in a transfected human chronic m...

  16. RecA-assisted rapid enrichment of specific clones from model DNA libraries.

    Science.gov (United States)

    Teintze, M; Arzimanoglou, I I; Lovelace, C I; Xu, Z J; Rigas, B

    1995-06-26

    An approach to library screening is being developed, in which the desired clone is "fished" out of a mixture of all the recombinants in a library with a RecA-coated probe. In the current embodiment of this method, we used as a probe the (+) strand of an M13 phage containing a fragment of the human albumin gene and a (dA)49 stretch. We screened a library of two plasmids, one containing the same albumin fragment as the probe, and one heterologous to the probe in 50-100 fold molar excess. The plasmids were linearized. Probe and library were reacted in the presence of RecA, the mixture was loaded onto an oligo(dT) column, which retained the probe-target complex by base-pairing to the dAs of the probe, the uncaptured plasmids were washed, and the probe-target complex was released from the column, religated and propagated into E. coli. Recovery of the homologous target was 15-28%, and enrichment for the homologous plasmid was 200 to 400-fold. This approach may provide a general method for expedited DNA library screening.

  17. A method for using solid modeling CAD software to create an implant library for the fabrication of a custom abutment.

    Science.gov (United States)

    Zhang, Jing; Zhang, Rimei; Ren, Guanghui; Zhang, Xiaojie

    2017-02-01

    This article describes a method that incorporates the solid modeling CAD software Solidworks with a dental milling machine to fabricate individual abutments in house. This process involves creating an implant library with 3-dimensional (3D) models and manufacturing a base, scan element, abutment, and crown anatomy. The 3D models can be imported into any dental computer-aided design and computer-aided (CAD-CAM) manufacturing system. This platform increases abutment design flexibility, as the base and scan elements can be designed to fit several shapes as needed to meet clinical requirements.

  18. The Data Model Resource Book A Library of Universal Data Models for All Enterprises

    CERN Document Server

    Silverston, Len

    2008-01-01

    A quick and reliable way to build proven databases for core business functionsIndustry experts raved about The Data Model Resource Book when it was first published in March 1997 because it provided a simple, cost-effective way to design databases for core business functions. Len Silverston has now revised and updated the hugely successful First Edition, while adding a companion volume to take care of more specific requirements of different businesses. Each volume is accompanied by a CD-ROM, which is sold separately. Each CD-ROM provides powerful design templates discussed in the books in a rea

  19. Community Digital Library Requirements for the Southern California Earthquake Center Community Modeling Environment (SCEC/CME)

    Science.gov (United States)

    Moore, R.; Faerman, M.; Minster, J.; Day, S. M.; Ely, G.

    2003-12-01

    A community digital library provides support for ingestion, organization, description, preservation, and access of digital entities. The technologies that traditionally provide these capabilities are digital libraries (ingestion, organization, description), persistent archives (preservation) and data grids (access). We present a design for the SCEC community digital library that incorporates aspects of all three systems. Multiple groups have created integrated environments that sustain large-scale scientific data collections. By examining these projects, the following stages of implementation can be identified: \\begin{itemize} Definition of semantic terms to associate with relevant information. This includes definition of uniform content descriptors to describe physical quantities relevant to the scientific discipline, and creation of concept spaces to define how the uniform content descriptors are logically related. Organization of digital entities into logical collections that make it simple to browse and manage related material. Definition of services that are used to access and manipulate material in the collection. Creation of a preservation environment for the long-term management of the collection. Each community is faced with heterogeneity that is introduced when data is distributed across multiple sites, or when multiple sets of collection semantics are used, and or when multiple scientific sub-disciplines are federated. We will present the relevant standards that simplify the implementation of the SCEC community library, the resource requirements for different types of data sets that drive the implementation, and the digital library processes that the SCEC community library will support. The SCEC community library can be viewed as the set of processing steps that are required to build the appropriate SCEC reference data sets (SCEC approved encoding format, SCEC approved descriptive metadata, SCEC approved collection organization, and SCEC managed storage

  20. Applying DEA Technique to Library Evaluation in Academic Research Libraries.

    Science.gov (United States)

    Shim, Wonsik

    2003-01-01

    This study applied an analytical technique called Data Envelopment Analysis (DEA) to calculate the relative technical efficiency of 95 academic research libraries, all members of the Association of Research Libraries. DEA, with the proper model of library inputs and outputs, can reveal best practices in the peer groups, as well as the technical…

  1. Biomedical Libraries

    Science.gov (United States)

    Pizer, Irwin H.

    1978-01-01

    Biomedical libraries are discussed as a distinct and specialized group of special libraries and their unique services and user interactions are described. The move toward professional standards, as evidenced by the Medical Library Association's new certification program, and the current state of development for a new section of IFLA established…

  2. Digital Libraries

    CERN Document Server

    Papy, Fabrice

    2008-01-01

    Of vital interest to all librarians and information specialists, this book presents all aspects of the effects of digitization of today's and tomorrow's libraries. From social to technical issues, Digital Libraries includes chapters on the growth of the role of librarian, the reader experience, cataloging, search engines, OPAC, law, ergonomic studies, and the future of libraries.

  3. 图书馆文化塑造刍议%On the Modeling of the Library Culture

    Institute of Scientific and Technical Information of China (English)

    蒋向红

    2001-01-01

    图书馆文化塑造是一个循环往复,不断提高的过程,其步骤包括基 础调研、目标设计、指导实践、完善提高四个环节,而创立图书馆文化礼仪,塑造图书馆文化楷模,创造图书馆文化氛围是图书馆文化塑造的基本形式。%The modeling of the library culture is a spirally progressing proce dure,which includes four stages: survey, objective design,guidance of practice and improvement. Adopting acceptable protocols, establishing fit example s and creating good environments constitute the main contents of the library cult ure.

  4. A model library for dynamic transport and fate of micropollutants in integrated urban wastewater and stormwater systems

    DEFF Research Database (Denmark)

    Vezzaro, Luca; Benedetti, Lorenzo; Gevaert, Veerle

    2014-01-01

    The increasing efforts in reducing the emission of micropollutants (MP) into the natural aquatic environment require the development of modelling tools to support the decision making process. This article presents a library of dynamic modelling tools for estimating MP fluxes within Integrated Urban...... for the elaboration of pollution control strategies (including both source control and treatment options) at the small spatial scale of urban areas. Existing and well-established water quality models for the different parts of the IUWS (e.g. ASM models) are extended by adding MP fate processes. These are modelled...... by using substance inherent properties, following an approach commonly used in large-scale MP multimedia fate and transport models. The chosen level of complexity ensures a low data requirement and minimizes the need for field measurements. Next to a synthesis of model applications, a didactic example...

  5. A theoretical model to predict customer satisfaction in relation to service quality in selected university libraries in Sri Lanka

    Directory of Open Access Journals (Sweden)

    Chaminda Jayasundara

    2009-01-01

    Full Text Available University library administrators in Sri Lanka have begun to search for alternative ways to satisfy their clientele on the basis of service quality. This article aims at providing a theoretical model to facilitate the identification of service quality attributes and domains that may be used to predict customer satisfaction from a service quality perspective. The effectiveness of existing service quality models such as LibQUAL, SERVQUAL and SERVPREF have been questioned. In that regard, this study developed a theoretical model for academic libraries in Sri Lanka based on the disconfirmation and performance-only paradigms. These perspectives were considered by researchers to be the core mechanism to develop service quality/customer satisfaction models. The attributes and domain identification of service quality was carried out with a stratified sample of 263 participants selected from postgraduate and undergraduate students and academic staff members from the faculties of Arts in four universities in Sri Lanka. The study established that responsiveness, supportiveness, building environment, collection and access, furniture and facilities, technology, Web services and service delivery were quality domains which can be used to predict customer satisfaction. The theoretical model is unique in its domain structure compared to the existing models. The model needs to be statistically tested to make it valid and parsimonious.

  6. Chum-RNA allows preparation of a high-quality cDNA library from a single-cell quantity of mRNA without PCR amplification

    OpenAIRE

    2008-01-01

    Linear RNA amplification using T7 RNA polymerase is useful in genome-wide analysis of gene expression using DNA microarrays, but exponential amplification using polymerase chain reaction (PCR) is still required for cDNA library preparation from single-cell quantities of RNA. We have designed a small RNA molecule called chum-RNA that has enabled us to prepare a single-cell cDNA library after four rounds of T7-based linear amplification, without using PCR amplification. Chum-RNA drove cDNA synt...

  7. MicroRNA library screening identifies growth-suppressive microRNAs that regulate genes involved in cell cycle progression and apoptosis.

    Science.gov (United States)

    Choi, Young-Chul; Yoon, Sena; Byun, Yuree; Lee, Gangtae; Kee, Honghwan; Jeong, Yongsu; Yoon, Jaeseung; Baek, Kwanghee

    2015-12-10

    Micro(mi)RNAs play important and varied roles in tumorigenesis; however, the full repertoire of miRNAs that affect cancer cell growth is not known. In this study, an miRNA library was screened to identify those that affect the growth of A549 tumor cells. Among 300 miRNAs, miR-28-5p, -323-5p, -510-5p, -552-3p, and -608 were the most effective in inhibiting cell growth. More specifically, overexpressing miR-28-5p, -323-5p, and -510-5p induced G1 arrest, as determined by flow cytometry, whereas that of miR-608 induced cell death in a caspase-dependent manner. Moreover, several genes involved in apoptosis and cell cycle progression were downregulated upon overexpression of each of the five miRNAs, with the functional targets of miR-552-3p and miR-608 confirmed by microarray, quantitative real-time PCR, and luciferase reporter assay. In miR-608-transfected cells, B cell lymphoma 2-like 1 (BCL2L1), D-type cyclin 1 (CCND1), CCND3, cytochrome b5 reductase 3 (CYB5R3), phosphoinositide 3-kinase regulatory subunit 2 (PIK3R2), specificity protein 1 (SP1), and phosphorylated Akt were all downregulated, while Bcl-2-interacting killer (BIK) was upregulated. Moreover, miR-608 was determined to have a suppressive function on tumor growth in an NCI-H460 xenograft model. These findings provide insights into the roles of five miRNAs in growth inhibition and their potential function as cancer therapeutics.

  8. Lung fibrosis: drug screening and disease biomarker identification with a lung slice culture model and subtracted cDNA Library.

    Science.gov (United States)

    Guo, Tong; Lok, Ka Yee; Yu, Changhe; Li, Zhuo

    2014-09-01

    Pulmonary fibrosis is a progressive and irreversible disorder with no appropriate cure. A practical and effective experimental model that recapitulates the disease will greatly benefit the research community and, ultimately, patients. In this study, we tested the lung slice culture (LSC) system for its potential use in drug screening and disease biomarker identification. Fibrosis was induced by treating rat lung slices with 1ng/ml TGF-β1 and 2.5μM CdCl2, quantified by measuring the content of hydroxyproline, and confirmed by detecting the expression of collagen type III alpha 1 (Col3α1) and connective tissue growth factor (CTGF) genes. The anti-fibrotic effects of pirfenidone, spironolactone and eplerenone were assessed by their capability to reduce hydroxyproline content. A subtractive hybridisation technique was used to create two cDNA libraries (subtracted and unsubtracted) from lung slices. The housekeeping gene glyceraldehyde-3-phosphate dehydrogenase (GAPDH) was employed to assess the subtraction efficiency of the subtracted cDNA library. Clones from the two libraries were sequenced and the genes were identified by performing a BLAST search on the NCBI GenBank database. Furthermore, the relevance of the genes to fibrosis formation was verified. The results presented here show that fibrosis was effectively induced in cultured lung slices, which exhibited significantly elevated levels of hydroxyproline and Col3α1/CTGF gene expression. Several inhibitors have demonstrated their anti-fibrotic effects by significantly reducing hydroxyproline content. The subtracted cDNA library, which was enriched for differentially expressed genes, was used to successfully identify genes associated with fibrosis. Collectively, the results indicate that our LSC system is an effective model for the screening of drug candidates and for disease biomarker identification.

  9. Depository Libraries and Public Services.

    Science.gov (United States)

    Kessler, Ridley

    1998-01-01

    Discusses the Wright State University (Ohio) Library policy directive on customer service, and suggests this document as a model to follow in setting up service standards or guidelines for depository-library services. Draft-depository library public-service guidelines for government information in electronic format are appended. (JAK)

  10. Mobile library services best practices

    CERN Document Server

    Harmon, Charles

    2013-01-01

    Mobile Library Services provides 11 proven ways to reach out to mobile users and increase your library's relevance to their day-to-day lives. Librarians detail how they created mobile apps to how they went mobile on a shoestring budget. Written by public, academic, and special librarians, these 11 best practices offer models for libraries of every type and size.

  11. PEM Fuel Cells - Fundamentals, Modeling and Applications

    Directory of Open Access Journals (Sweden)

    Maher A.R. Sadiq Al-Baghdadi

    2013-01-01

    Full Text Available Part I: Fundamentals Chapter 1: Introduction. Chapter 2: PEM fuel cell thermodynamics, electrochemistry, and performance. Chapter 3: PEM fuel cell components. Chapter 4: PEM fuel cell failure modes. Part II: Modeling and Simulation Chapter 5: PEM fuel cell models based on semi-empirical simulation. Chapter 6: PEM fuel cell models based on computational fluid dynamics. Part III: Applications Chapter 7: PEM fuel cell system design and applications.

  12. Building and optimizing a virus-specific T cell receptor library for targeted immunotherapy in viral infections.

    Science.gov (United States)

    Banu, Nasirah; Chia, Adeline; Ho, Zi Zong; Garcia, Alfonso Tan; Paravasivam, Komathi; Grotenbreg, Gijsbert M; Bertoletti, Antonio; Gehring, Adam J

    2014-02-25

    Restoration of antigen-specific T cell immunity has the potential to clear persistent viral infection. T cell receptor (TCR) gene therapy can reconstitute CD8 T cell immunity in chronic patients. We cloned 10 virus-specific TCRs targeting 5 different viruses, causing chronic and acute infection. All 10 TCR genetic constructs were optimized for expression using a P2A sequence, codon optimization and the addition of a non-native disulfide bond. However, maximum TCR expression was only achieved after establishing the optimal orientation of the alpha and beta chains in the expression cassette; 9/10 TCRs favored the beta-P2A-alpha orientation over alpha-P2A-beta. Optimal TCR expression was associated with a significant increase in the frequency of IFN-gamma+ T cells. In addition, activating cells for transduction in the presence of Toll-like receptor ligands further enhanced IFN-gamma production. Thus, we have built a virus-specific TCR library that has potential for therapeutic intervention in chronic viral infection or virus-related cancers.

  13. DNA-encoded antibody libraries: a unified platform for multiplexed cell sorting and detection of genes and proteins.

    Science.gov (United States)

    Bailey, Ryan C; Kwong, Gabriel A; Radu, Caius G; Witte, Owen N; Heath, James R

    2007-02-21

    Whether for pathological examination or for fundamental biology studies, different classes of biomaterials and biomolecules are each measured from a different region of a typically heterogeneous tissue sample, thus introducing unavoidable sources of noise that are hard to quantitate. We describe the method of DNA-encoded antibody libraries (DEAL) for spatially multiplexed detection of ssDNAs and proteins as well as for cell sorting, all on the same diagnostic platform. DEAL is based upon the coupling of ssDNA oligomers onto antibodies which are then combined with the biological sample of interest. Spotted DNA arrays, which are found to inhibit biofouling, are utilized to spatially stratify the biomolecules or cells of interest. We demonstrate the DEAL technique for (1) the rapid detection of multiple proteins within a single microfluidic channel, and, with the additional step of electroless amplification of gold-nanoparticle labeled secondary antibodies, we establish a detection limit of 10 fM for the protein IL-2, 150 times more sensitive than the analogue ELISA; (2) the multiplexed, on-chip sorting of both immortalized cell lines and primary immune cells with an efficiency that exceeds surface-confined panning approaches; and (3) the co-detection of ssDNAs, proteins, and cell populations on the same platform.

  14. Cost Accounting and Analysis for University Libraries.

    Science.gov (United States)

    Leimkuhler, Ferdinand F.; Cooper, Michael D.

    The approach to library planning studied in this report is the use of accounting models to measure library costs and implement program budgets. A cost-flow model for a university library is developed and listed with historical data from the Berkeley General Library. Various comparisons of an exploratory nature are made of the unit costs for…

  15. Identification of cancer specific ligands from one-bead one compound combinatorial libraries to develop theranostics agents against oral squamous cell carcinoma

    Science.gov (United States)

    Yang, Frances Fan

    Background: Oral squamous cell carcinoma (OSCC) is one of the most prevalent disease worldwide. One-bead one-compound (OBOC) combinatorial technology is a powerful method to identify peptidomimetic ligands against a variety of receptors on cell surfaces. We therefore hypothesized that cancer specific ligands against OSCC might be identified and can be conjugated to optical dyes or nanocarriers to develop theranostic agents against OSCC. Material and methods: Different OSCC cell lines were incubated with OBOC libraries and beads with cell binding were sorted and then screened with normal human cells to identify peptide-beads binding to different OSCC cell lines but not binding to normal human cells. The molecular probes of OSCC were developed by biotinylating the carboxyl end of the ligands. OSCC theranostic agents were developed by decorating LLY13 with NPs and evaluated by using orthotopic bioluminescent oral cancer model. Results: Six OSCC specific ligands were discovered. Initial peptide-histochemistry study indicated that LLY12 and LLY13 were able to specifically detect OSCC cells grown on chamber slides at the concentration of 1 muM. In addition, LLY13 was found to penetrate into the OSCC cells and accumulate in the cytoplasm, and nucleus. After screened with a panel of integrin antibodies, only anti-alpha3 antibody was able to block most of OSCC cells binding to the LLY13 beads. OSCC theranostic agents developed using targeting LLY13 micelles (25+/- 4nm in diameter) were more efficient in binding to HSC-3 cancer cells compared to non-targeting micelles. Ex vivo images demonstrated that xenografts from the mice with targeting micelles appeared to have higher signals than the non-targeting groups. Conclusion: LLY13 has promising in vitro and in vivo targeting activity against OSCC. In addition, LLY13 is also able to penetrate into cancer cells via endocytosis. Initial study indicated that alpha3 integrin might partially be the corresponding receptor involved

  16. Democratizing Human Genome Project Information: A Model Program for Education, Information and Debate in Public Libraries.

    Science.gov (United States)

    Pollack, Miriam

    The "Mapping the Human Genome" project demonstrated that librarians can help whomever they serve in accessing information resources in the areas of biological and health information, whether it is the scientists who are developing the information or a member of the public who is using the information. Public libraries can guide library…

  17. Common Ground: Exploring Compatibilities between the Linked Data Models of the Library of Congress and OCLC

    Science.gov (United States)

    Godby, Carol Jean; Denenberg, Ray

    2015-01-01

    Jointly released by OCLC and the Library of Congress, this white paper compares and contrasts the compatible linked data initiatives at both institutions. It is an executive summary of a more detailed technical analysis that will be released later this year. The white paper summarizes the recent activity of the Bibliographic Framework Initiative…

  18. Identification of Eusynstyelamide B as a Potent Cell Cycle Inhibitor Following the Generation and Screening of an Ascidian-Derived Extract Library Using a Real Time Cell Analyzer

    Directory of Open Access Journals (Sweden)

    Michelle S. Liberio

    2014-10-01

    Full Text Available Ascidians are marine invertebrates that have been a source of numerous cytotoxic compounds. Of the first six marine-derived drugs that made anticancer clinical trials, three originated from ascidian specimens. In order to identify new anti-neoplastic compounds, an ascidian extract library (143 samples was generated and screened in MDA-MB-231 breast cancer cells using a real-time cell analyzer (RTCA. This resulted in 143 time-dependent cell response profiles (TCRP, which are read-outs of changes to the growth rate, morphology, and adhesive characteristics of the cell culture. Twenty-one extracts affected the TCRP of MDA-MB-231 cells and were further investigated regarding toxicity and specificity, as well as their effects on cell morphology and cell cycle. The results of these studies were used to prioritize extracts for bioassay-guided fractionation, which led to the isolation of the previously identified marine natural product, eusynstyelamide B (1. This bis-indole alkaloid was shown to display an IC50 of 5 µM in MDA-MB-231 cells. Moreover, 1 caused a strong cell cycle arrest in G2/M and induced apoptosis after 72 h treatment, making this molecule an attractive candidate for further mechanism of action studies.

  19. Reference Services in Australian Academic Libraries are Becoming More Multifaceted, A Review of: Burke, L. “Models of Reference Services in Australian Academic Libraries.” Journal of Librarianship and Information Science 40.4 (2008: 269‐86.

    Directory of Open Access Journals (Sweden)

    David Herron

    2009-09-01

    Full Text Available Objective – To investigate the current organizational models for reference work in Australian academic libraries, and how these reference services are staffed.Design – Mixed methods.Setting – Academic universities in Australia.Subjects – Forty Council of Australian University Librarians (CAUL member libraries.Methods – A literature study was undertaken to (1 find a definition of reference services and (2 explore the development of reference service models over time. Statistics from the CAUL member libraries were studied for trends in student population and number of academic and library staff. A web‐based survey, with questions based on the findings in the literature study, was then distributed to the 40 Australian university libraries in 2006. Respondents were asked when the library commenced different reference services in five areas: formats in which the library received and responded to reference queries, information literacy, subject specialization, liaison activities, and collection development. Respondents also answered questions about the organization of the reference department, including: whether they had a separate or integrated model; the size of the reference collections; if they had a librarian dedicated to supporting students studying in remote or distant mode; if the interlibrary loans department was part of the suite of reference services; and if they had a mission or statement of purpose for their reference services department.Main Results – Based on the literature study, the working definition of reference services (1 for the project was “all activities which assist in providing relevant and appropriate information services to patrons” (270, including:•All interactions with patrons to assist them in their searches for information in all media types.•All training by librarians of patrons to be able to access information for themselves.•Activities to help the library stay informed of relevant developments

  20. Identification of Novel Human Breast Carcinoma (MDA-MB-231 Cell Growth Modulators from a Carbohydrate-Based Diversity Oriented Synthesis Library

    Directory of Open Access Journals (Sweden)

    Elena Lenci

    2016-10-01

    Full Text Available The application of a cell-based growth inhibition on a library of skeletally different glycomimetics allowed for the selection of a hexahydro-2H-furo[3,2-b][1,4]oxazine compound as candidate inhibitors of MDA-MB-231 cell growth. Subsequent synthesis of analogue compounds and preliminary biological studies validated the selection of a valuable hit compound with a novel polyhydroxylated structure for the modulation of the breast carcinoma cell cycle mechanism.

  1. Identification of Novel Human Breast Carcinoma (MDA-MB-231) Cell Growth Modulators from a Carbohydrate-Based Diversity Oriented Synthesis Library.

    Science.gov (United States)

    Lenci, Elena; Innocenti, Riccardo; Biagioni, Alessio; Menchi, Gloria; Bianchini, Francesca; Trabocchi, Andrea

    2016-10-20

    The application of a cell-based growth inhibition on a library of skeletally different glycomimetics allowed for the selection of a hexahydro-2H-furo[3,2-b][1,4]oxazine compound as candidate inhibitors of MDA-MB-231 cell growth. Subsequent synthesis of analogue compounds and preliminary biological studies validated the selection of a valuable hit compound with a novel polyhydroxylated structure for the modulation of the breast carcinoma cell cycle mechanism.

  2. Construction of a hepatic stellate cells subtracted cDNA library of differentially expressed genes in normal mice and mice with Schistosomiasis japonica

    Institute of Scientific and Technical Information of China (English)

    Zheng Min; Wu Yi-jun; Cai Wei-min; Weng Hong-lei; Liu Rong-hua

    2005-01-01

    To construct a hepatic stellate cells (HSCs) subtracted cDNA library to find differentially expressed genes in normal mice and mice infected with Schistosomajaponicum (S. japonicum). Suppression subtractive hybridization (SSH) was used. The cDNA fragments of normal mouse were compared to those of schistosoma-infected mice to find differentially expressed genes.Then differentially expressed cDNA fragments were directly inserted into T/A cloning vector to set up the subtractive library.Amplification of the library was carried out with transformation of DH5α. The amplified library contained more than 400 positive bacterial clones, which were then hybridized with forward and backward subtracted probes for differential screening. One hundred positive bacterial clones were randomly selected for sequencing and BLAST analysis. Finally, virtual Northern Blot confirmed such differential expression. The subtracted cDNA library of differentially expressed genes of HSCs was constructed successfully,the library is efficient and lays foundation for screening and cloning new and specific genes of schistosomiasis.

  3. Targeting essential Eimeria ninakohlyakimovae sporozoite ligands for caprine host endothelial cell invasion with a phage display peptide library.

    Science.gov (United States)

    Ruiz, A; Pérez, D; Muñoz, M C; Molina, J M; Taubert, A; Jacobs-Lorena, M; Vega-Rodríguez, J; López, A M; Hermosilla, C

    2015-11-01

    Eimeria ninakohlyakimovae is an important coccidian parasite of goats which causes severe diarrhoea in young animals. Specific molecules that mediate E. ninakohlyakimovae host interactions and molecular mechanisms involved in the pathogenesis are still unknown. Although strong circumstantial evidence indicates that E. ninakohlyakimovae sporozoite interactions with caprine endothelial host cells (ECs) are specific, hardly any information is available about the interacting molecules that confer host cell specificity. In this study, we describe a novel method to identify surface proteins of caprine umbilical vein endothelial cells (CUVEC) using a phage display library. After several panning rounds, we identified a number of peptides that specifically bind to the surface of CUVEC. Importantly, caprine endothelial cell peptide 2 (PCEC2) and PCEC5 selectively reduced the infection rate by E. ninakohlyakimovae sporozoites. These preliminary data give new insight for the molecular identification of ligands involved in the interaction between E. ninakohlyakimovae sporozoites and host ECs. Further studies using this phage approach might be useful to identify new potential target molecules for the development of anti-coccidial drugs or even new vaccine strategies.

  4. Identification of novel compounds inhibiting chikungunya virus-induced cell death by high throughput screening of a kinase inhibitor library.

    Directory of Open Access Journals (Sweden)

    Deu John M Cruz

    Full Text Available Chikungunya virus (CHIKV is a mosquito-borne arthrogenic alphavirus that causes acute febrile illness in humans accompanied by joint pains and in many cases, persistent arthralgia lasting weeks to years. The re-emergence of CHIKV has resulted in numerous outbreaks in the eastern hemisphere, and threatens to expand in the foreseeable future. Unfortunately, no effective treatment is currently available. The present study reports the use of resazurin in a cell-based high-throughput assay, and an image-based high-content assay to identify and characterize inhibitors of CHIKV-infection in vitro. CHIKV is a highly cytopathic virus that rapidly kills infected cells. Thus, cell viability of HuH-7 cells infected with CHIKV in the presence of compounds was determined by measuring metabolic reduction of resazurin to identify inhibitors of CHIKV-associated cell death. A kinase inhibitor library of 4,000 compounds was screened against CHIKV infection of HuH-7 cells using the resazurin reduction assay, and the cell toxicity was also measured in non-infected cells. Seventy-two compounds showing ≥50% inhibition property against CHIKV at 10 µM were selected as primary hits. Four compounds having a benzofuran core scaffold (CND0335, CND0364, CND0366 and CND0415, one pyrrolopyridine (CND0545 and one thiazol-carboxamide (CND3514 inhibited CHIKV-associated cell death in a dose-dependent manner, with EC50 values between 2.2 µM and 7.1 µM. Based on image analysis, these 6 hit compounds did not inhibit CHIKV replication in the host cell. However, CHIKV-infected cells manifested less prominent apoptotic blebs typical of CHIKV cytopathic effect compared with the control infection. Moreover, treatment with these compounds reduced viral titers in the medium of CHIKV-infected cells by up to 100-fold. In conclusion, this cell-based high-throughput screening assay using resazurin, combined with the image-based high content assay approach identified compounds against

  5. 图书馆个性化服务模式的展望%Prospect of Individualization Service Model in Library

    Institute of Scientific and Technical Information of China (English)

    冯莉; 刘甲

    2011-01-01

    针对图书馆的个性化服务模式展望作者提出了图书馆个性化服务的模式含义.以及图书馆个性化信息服务模式的实现进行阐述.%The author put forward the meaning of library's individualization service in view of the model of library's individualization service. It also discusses the realization method of library's individualization service.

  6. The academic library network

    Directory of Open Access Journals (Sweden)

    Jacek Wojciechowski

    2012-01-01

    Full Text Available The efficiency of libraries, academic libraries in particular, necessitates organizational changes facilitating or even imposing co-operation. Any structure of any university has to have an integrated network of libraries, with an appropriate division of work, and one that is consolidated as much as it is possible into medium-size or large libraries. Within thus created network, a chance arises to centralize the main library processes based on appropriate procedures in the main library, highly specialized, more effective and therefore cheaper in operation, including a co-ordination of all more important endeavours and tasks. Hierarchically subordinated libraries can be thus more focused on performing their routine service, more and more frequently providing for the whole of the university, and being able to adjust to changeable requirements and demands of patrons and of new tasks resulting from the new model of the university operation. Another necessary change seems to be a universal implementation of an ov rall programme framework that would include all services in the university’s library networks.

  7. Subject indexing in the Portuguese polytechnic libraries: proposing a simplified model to make it possible

    OpenAIRE

    Martins, Mª Catarina Barradas

    2014-01-01

    Academic libraries are still working based on the traditional documentation techniques of cataloguing and indexing. The research about subject access in OPACs has demonstrated that inadequate indexing policies have negative influence on the way users search the catalogs: subject indexing and retrieval have a direct correspondence. Searching by subject in bibliographic catalogs must be, as much as possible, a successful experience for the users, and consistent subject indexes contribute to a m...

  8. SERVQUAL MODEL IMPLEMENTATION FOR EVALUATING QUALITY SERVICE OF THE LIBRARY OF HIGHER EDUCATIONINSTITUTION IN BOTUCATU REGION

    OpenAIRE

    2014-01-01

    Currently technology colleges are growing and gaining market share. So, it is of paramount importance a careful evaluation of the most important components in an institution of higher education, the library, which is fundamental for the development of future professionals. Therefore, the implementation of a tool to measure and compare results through user satisfaction in relation to services provided to a particular service is required. SERVQUAL is a measurement tool, used in t...

  9. Cell-Based Selection Expands the Utility of DNA-Encoded Small-Molecule Library Technology to Cell Surface Drug Targets: Identification of Novel Antagonists of the NK3 Tachykinin Receptor.

    Science.gov (United States)

    Wu, Zining; Graybill, Todd L; Zeng, Xin; Platchek, Michael; Zhang, Jean; Bodmer, Vera Q; Wisnoski, David D; Deng, Jianghe; Coppo, Frank T; Yao, Gang; Tamburino, Alex; Scavello, Genaro; Franklin, G Joseph; Mataruse, Sibongile; Bedard, Katie L; Ding, Yun; Chai, Jing; Summerfield, Jennifer; Centrella, Paolo A; Messer, Jeffrey A; Pope, Andrew J; Israel, David I

    2015-12-14

    DNA-encoded small-molecule library technology has recently emerged as a new paradigm for identifying ligands against drug targets. To date, this technology has been used with soluble protein targets that are produced and used in a purified state. Here, we describe a cell-based method for identifying small-molecule ligands from DNA-encoded libraries against integral membrane protein targets. We use this method to identify novel, potent, and specific inhibitors of NK3, a member of the tachykinin family of G-protein coupled receptors (GPCRs). The method is simple and broadly applicable to other GPCRs and integral membrane proteins. We have extended the application of DNA-encoded library technology to membrane-associated targets and demonstrate the feasibility of selecting DNA-tagged, small-molecule ligands from complex combinatorial libraries against targets in a heterogeneous milieu, such as the surface of a cell.

  10. SOSpin, a C++ library for Yukawa decomposition in $\\mathsf{SO}(2N)$ models

    CERN Document Server

    Cardoso, Nuno; Gonçalves, Nuno; Simoes, C

    2015-01-01

    We present in this paper the SOSpin library, which calculates an analytic decomposition of the Yukawa interactions invariant under any $\\mathsf{SO}(2N)$ group in terms of an $\\mathsf{SU}(N)$ basis. We make use of the oscillator expansion formalism, where the $\\mathsf{SO}(2N)$ spinor representations are expressed in terms of creation and annihilation operators of a Grassmann algebra. These noncommutative operators and their products are simulated in SOSpin through the implementation of doubly-linked-list data structures. These data structures were determinant to achieve a higher performance in the simplification of large products of creation and annihilation operators. We illustrate the use of our library with complete examples of how to decompose Yukawa terms invariant under $\\mathsf{SO}(2N)$ in terms of $\\mathsf{SU}(N)$ degrees of freedom for $N=2$ and $5$. We further demonstrate, with an example for $\\mathsf{SO}(4)$, that higher dimensional field-operator terms can also be processed with our library. Finall...

  11. Structural libraries of protein models for multiple species to understand evolution of the renin-angiotensin system.

    Science.gov (United States)

    Prokop, Jeremy W; Petri, Victoria; Shimoyama, Mary E; Watanabe, Ingrid K M; Casarini, Dulce E; Leeper, Thomas C; Bilinovich, Stephanie M; Jacob, Howard J; Santos, Robson A S; Martins, Almir S; Araujo, Fabiano C; Reis, Fernando M; Milsted, Amy

    2015-05-01

    The details of protein pathways at a structural level provides a bridge between genetics/molecular biology and physiology. The renin-angiotensin system is involved in many physiological pathways with informative structural details in multiple components. Few studies have been performed assessing structural knowledge across the system. This assessment allows use of bioinformatics tools to fill in missing structural voids. In this paper we detail known structures of the renin-angiotensin system and use computational approaches to estimate and model components that do not have their protein structures defined. With the subsequent large library of protein structures, we then created a species specific protein library for human, mouse, rat, bovine, zebrafish, and chicken for the system. The rat structural system allowed for rapid screening of genetic variants from 51 commonly used rat strains, identifying amino acid variants in angiotensinogen, ACE2, and AT1b that are in contact positions with other macromolecules. We believe the structural map will be of value for other researchers to understand their experimental data in the context of an environment for multiple proteins, providing pdb files of proteins for the renin-angiotensin system in six species. With detailed structural descriptions of each protein, it is easier to assess a species for use in translating human diseases with animal models. Additionally, as whole genome sequencing continues to decrease in cost, tools such as molecular modeling will gain use as an initial step in designing efficient hypothesis driven research, addressing potential functional outcomes of genetic variants with precompiled protein libraries aiding in rapid characterizations.

  12. Cost Models in Digital Archiving: An overview of Life Cycle Management at the National Library of the Netherlands

    Directory of Open Access Journals (Sweden)

    Erik Oltmans

    2004-10-01

    Full Text Available The number of institutions that are either considering the implementation of a digital archive or already started with an operational digital archive service is increasing. While technological and organisational challenges are well-studied and in few cases even well-defined, the subject of costs often remains untouched, which in many cases prevent organisations from new initiatives. In this paper two leading digital preservation techniques - migration and emulation - will be discussed in terms of life cycle management and associated cost models. Both techniques are studied and considered for implementation at the Koninklijke Bibliotheek, National Library of the Netherlands.

  13. Modeling a Library Web Site Redesign Process: Developing a User-Centered Web Site Through Usability Testing

    Directory of Open Access Journals (Sweden)

    Danielle A. Becker

    2013-03-01

    Full Text Available This article presents a model for creating a strong, user-centered web presence by pairing usability testing and the design process. Four rounds of usability testing were conducted throughout the process of building a new academic library web site. Participants were asked to perform tasks using a talk-aloud protocol. Tasks were based on guiding principles of web usability that served as a framework for the new site. Results from this study show that testing throughout the design process is an effective way to build a web site that not only reflects user needs and preferences, but can be easily changed as new resources and technologies emerge.

  14. Parallelization of MODFLOW using a GPU library.

    Science.gov (United States)

    Ji, Xiaohui; Li, Dandan; Cheng, Tangpei; Wang, Xu-Sheng; Wang, Qun

    2014-01-01

    A new method based on a graphics processing unit (GPU) library is proposed in the paper to parallelize MODFLOW. Two programs, GetAb_CG and CG_GPU, have been developed to reorganize the equations in MODFLOW and solve them with the GPU library. Experimental tests using the NVIDIA Tesla C1060 show that a 1.6- to 10.6-fold speedup can be achieved for models with more than 10(5) cells. The efficiency can be further improved by using up-to-date GPU devices.

  15. 图书馆精神的救赎——榜样教育%Salvation of Library Spirit --Model Education

    Institute of Scientific and Technical Information of China (English)

    陈文革

    2011-01-01

    The reason of library job burnout is the intelligence materialization. Library job burnout embodys development economism, social values orientated at money, cognitive bias of librarian values and library engaged in business. Library job burnout endangers the development of librarians and libraries, its substance is lack of library spirit. Model education could nurture library spirit effectively and overcome job burnout, so as to promote the development of librarianship.%图书馆职业懈怠产生的原因在于智力物化,具体表现为发展唯经济论、社会价值取向金钱化、图书馆员价值认知偏差、图书馆经营化4个方面。图书馆职业懈怠危害了馆员个人和图书馆事业的发展,其实质是图书馆精神缺失。开展图书馆榜样教育可以有效培育图书馆精神,克服职业懈怠,从而推动图书馆事业发展。

  16. America's Star Libraries: Top-Rated Libraries

    Science.gov (United States)

    Lance, Keith Curry; Lyons, Ray

    2009-01-01

    "Library Journal"'s national rating of public libraries, the "LJ" Index of Public Library Service 2009, Round 2, identifies 258 "star" libraries. Created by Keith Curry Lance and Ray Lyons and based on 2007 data from the IMLS, it rates 7,268 public libraries. The top libraries in each group get five, four, or three stars. All included libraries,…

  17. Library Locations

    Data.gov (United States)

    Allegheny County / City of Pittsburgh / Western PA Regional Data Center — Carnegie Library of Pittsburgh locations including address, coordinates, phone number, square footage, and standard operating hours.

  18. Modular SiGe 130 nm Cell Library for Extreme Environments Project

    Data.gov (United States)

    National Aeronautics and Space Administration — NASA space missions utilizing application-specific integrated circuits (ASICs) under extreme conditions have a critical need for high performance analog cell...

  19. A Model Job Training Program for Summer Youth: Library Interns at Grambling State University, A.C. Lewis Memorial Library, Grambling, Louisiana.

    Science.gov (United States)

    Carroll, Sally; Stokley, Sandra

    1999-01-01

    A six-week university library intern program sponsored by the Job Training Partnership Act investigated the impact of 12 economically disadvantaged high school students working at Grambling State University (Louisiana). Interns succeeded, learned skills later described on their resumes and job application letters, and gained self-esteem and job…

  20. An expressed sequence tag (EST library for Drosophila serrata, a model system for sexual selection and climatic adaptation studies

    Directory of Open Access Journals (Sweden)

    McGraw Elizabeth A

    2009-01-01

    Full Text Available Abstract Background The native Australian fly Drosophila serrata belongs to the highly speciose montium subgroup of the melanogaster species group. It has recently emerged as an excellent model system with which to address a number of important questions, including the evolution of traits under sexual selection and traits involved in climatic adaptation along latitudinal gradients. Understanding the molecular genetic basis of such traits has been limited by a lack of genomic resources for this species. Here, we present the first expressed sequence tag (EST collection for D. serrata that will enable the identification of genes underlying sexually-selected phenotypes and physiological responses to environmental change and may help resolve controversial phylogenetic relationships within the montium subgroup. Results A normalized cDNA library was constructed from whole fly bodies at several developmental stages, including larvae and adults. Assembly of 11,616 clones sequenced from the 3' end allowed us to identify 6,607 unique contigs, of which at least 90% encoded peptides. Partial transcripts were discovered from a variety of genes of evolutionary interest by BLASTing contigs against the 12 Drosophila genomes currently sequenced. By incorporating into the cDNA library multiple individuals from populations spanning a large portion of the geographical range of D. serrata, we were able to identify 11,057 putative single nucleotide polymorphisms (SNPs, with 278 different contigs having at least one "double hit" SNP that is highly likely to be a real polymorphism. At least 394 EST-associated microsatellite markers, representing 355 different contigs, were also found, providing an additional set of genetic markers. The assembled EST library is available online at http://www.chenowethlab.org/serrata/index.cgi. Conclusion We have provided the first gene collection and largest set of polymorphic genetic markers, to date, for the fly D. serrata. The EST

  1. Learning Commons in Academic Libraries

    Directory of Open Access Journals (Sweden)

    Larisa González Martínez

    2015-01-01

    Full Text Available Like all human creations, institutions transform and evolve over time. Libraries also have changed to respond the needs of its users. Academic libraries physical spaces are one of the turned aspects, an example are the Learning Commons (spaces for collaborative work in academic libraries. The main purpose of this paper is to expose the characteristics of the Learning Commons model with a brief account of the history of planning and construction of academic libraries. This paper also aims to present the manner in which a Learning Commons has been implemented at the library of Instituto Tecnológico y de Estudios Superiores de Monterrey (ITESM, Campus Monterrey in Mexico.

  2. An MDCK cell culture-derived formalin-inactivated influenza virus whole-virion vaccine from an influenza virus library confers cross-protective immunity by intranasal administration in mice.

    Science.gov (United States)

    Haredy, Ahmad M; Takenaka, Nobuyuki; Yamada, Hiroshi; Sakoda, Yoshihiro; Okamatsu, Masatoshi; Yamamoto, Naoki; Omasa, Takeshi; Ohtake, Hisao; Mori, Yasuko; Kida, Hiroshi; Yamanishi, Koichi; Okamoto, Shigefumi

    2013-07-01

    It is currently impossible to predict the next pandemic influenza virus strain. We have thus established a library of influenza viruses of all hemagglutinin and neuraminidase subtypes and their genes. In this article, we examine the applicability of a rapid production model for the preparation of vaccines against emerging pandemic influenza viruses. This procedure utilizes the influenza virus library, cell culture-based vaccine production, and intranasal administration to induce a cross-protective immune response. First, an influenza virus reassortant from the library, A/duck/Hokkaido/Vac-3/2007 (H5N1), was passaged 22 times (P22) in Madin-Darby canine kidney (MDCK) cells. The P22 virus had a titer of >2 ×10(8) PFU/ml, which was 40 times that of the original strain, with 4 point mutations, which altered amino acids in the deduced protein sequences encoded by the PB2 and PA genes. We then produced a formalin-inactivated whole-virion vaccine from the MDCK cell-cultured A/duck/Hokkaido/Vac-3/2007 (H5N1) P22 virus. Intranasal immunization of mice with this vaccine protected them against challenges with lethal influenza viruses of homologous and heterologous subtypes. We further demonstrated that intranasal immunization with the vaccine induced cross-reactive neutralizing antibody responses against the homotypic H5N1 influenza virus and its antigenic variants and cross-reactive cell-mediated immune responses to the homologous virus, its variants within a subtype, and even an influenza virus of a different subtype. These results indicate that a rapid model for emergency vaccine production may be effective for producing the next generation of pandemic influenza virus vaccines.

  3. Grading Model of College Library Crisis Management%高校图书馆危机管理之分级模式

    Institute of Scientific and Technical Information of China (English)

    裴允; 陈颖颖; 郭楠; 赵婷

    2011-01-01

    高校图书馆危机管理的能力与成效直接关系到图书馆服务的质量及声誉,甚至关系到学校的整体形象.本文根据危机的强度与频度对高校图书馆的危机进行分级,并制定相应的预警和对策,为高校图书馆危机管理提供了一个全新的管理模式.%The ability and effectiveness of university library crisis management are directly related to library services quality and reputation, even to the school's overall image.Based on the intensity and frequency of the crisis, the university library crises are graded, and appropriate early warning and response are made, providing a new management model for crisis management of university library.

  4. 图书馆知识共享空间模型构建研究%Research on a Model of Library Knowledge Commons

    Institute of Scientific and Technical Information of China (English)

    朱红涛; 周九常; 胡守敏

    2011-01-01

    图书馆知识共享空间是满足用户知识共享活动服务需求的重要平台和场所。文章在界定图书馆知识共享空间概念的基础上,分析图书馆知识共享空间运行需求,构建出包括知识共享平台、知识资源供给等模块的图书馆知识共享空间模型。%Library knowledge commons is an important platform and location by which libraries provide services for users' knowledge sharing.Based on defining the conception of library knowledge commons,the authors analyze its operating needs,and then construct a model of library knowledge commons,which includes knowledge sharing platform,knowledge resources supply,and other modules.

  5. Rethinking library service to distance education students: analyzing the embedded librarian model.

    Science.gov (United States)

    Sullo, Elaine; Harrod, Tom; Butera, Gisela; Gomes, Alexandra

    2012-01-01

    Since fall 2009, reference librarians at The George Washington University's Himmelfarb Health Sciences Library have been embedded in online classes through Blackboard within the School of Nursing and School of Medicine and Health Sciences. The authors sought to determine the types of questions asked of the librarian, with the goal of informing future interactions with distance education classes to help develop a standard "protocol" for working with this population of students. Eighty-two questions were categorized and qualitatively analyzed. The findings have prompted librarians to explore tools such as Elluminate Live!, a tool that allows librarians to provide synchronous instruction within the Blackboard environment.

  6. Privatizing Libraries

    Science.gov (United States)

    Jerrard, Jane; Bolt, Nancy; Strege, Karen

    2012-01-01

    This timely special report from ALA Editions provides a succinct but comprehensive overview of the "privatization" of public libraries. It provides a history of the trend of local and state governments privatizing public services and assets, and then examines the history of public library privatization right up to the California legislation…

  7. Cellular cardiac electrophysiology modeling with Chaste and CellML.

    Science.gov (United States)

    Cooper, Jonathan; Spiteri, Raymond J; Mirams, Gary R

    2014-01-01

    Chaste is an open-source C++ library for computational biology that has well-developed cardiac electrophysiology tissue simulation support. In this paper, we introduce the features available for performing cardiac electrophysiology action potential simulations using a wide range of models from the Physiome repository. The mathematics of the models are described in CellML, with units for all quantities. The primary idea is that the model is defined in one place (the CellML file), and all model code is auto-generated at compile or run time; it never has to be manually edited. We use ontological annotation to identify model variables describing certain biological quantities (membrane voltage, capacitance, etc.) to allow us to import any relevant CellML models into the Chaste framework in consistent units and to interact with them via consistent interfaces. This approach provides a great deal of flexibility for analysing different models of the same system. Chaste provides a wide choice of numerical methods for solving the ordinary differential equations that describe the models. Fixed-timestep explicit and implicit solvers are provided, as discussed in previous work. Here we introduce the Rush-Larsen and Generalized Rush-Larsen integration techniques, made available via symbolic manipulation of the model equations, which are automatically rearranged into the forms required by these approaches. We have also integrated the CVODE solvers, a 'gold standard' for stiff systems, and we have developed support for symbolic computation of the Jacobian matrix, yielding further increases in the performance and accuracy of CVODE. We discuss some of the technical details of this work and compare the performance of the available numerical methods. Finally, we discuss how this is generalized in our functional curation framework, which uses a domain-specific language for defining complex experiments as a basis for comparison of model behavior.

  8. Physical models of collective cell motility: from cell to tissue

    Science.gov (United States)

    Camley, B. A.; Rappel, W.-J.

    2017-03-01

    In this article, we review physics-based models of collective cell motility. We discuss a range of techniques at different scales, ranging from models that represent cells as simple self-propelled particles to phase field models that can represent a cell’s shape and dynamics in great detail. We also extensively review the ways in which cells within a tissue choose their direction, the statistics of cell motion, and some simple examples of how cell–cell signaling can interact with collective cell motility. This review also covers in more detail selected recent works on collective cell motion of small numbers of cells on micropatterns, in wound healing, and the chemotaxis of clusters of cells.

  9. EST sequencing and fosmid library construction in a non-model moth, Mamestra brassicae, for comparative mapping.

    Science.gov (United States)

    Kamimura, Manabu; Tateishi, Ken; Tanaka-Okuyama, Makiko; Okabe, Takuya; Shibata, Fukashi; Sahara, Ken; Yasukochi, Yuji

    2012-11-01

    Genome data are useful for both basic and applied research; however, it is difficult to carry out large-scale genome analyses using species with limited genetic or genomic resources. Here, we describe a cost-effective method to analyze the genome of a non-model species, using the cabbage moth, Mamestra brassicae (Lepidoptera: Noctuidae). First, we conducted expression sequence tag (EST) analysis. In this analysis, we performed PCR-based prescreening of a non-normalized embryonic cDNA library to eliminate already sequenced cDNAs from further sequencing, which significantly increased the percentage of unique genes. Next, we constructed a fosmid library of M. brassicae and isolated 120 clones containing 119 putative single copy genes by PCR-based screening with primer sets designed from the ESTs. Finally, we showed that the isolated fosmid clones could be used as probes for multicolor fluorescence in situ hybridization (FISH) analysis against an M. brassicae chromosome and confirmed conserved gene order between M. brassicae and the silkworm, Bombyx mori. Thus, we developed new genomic resources for comparative genome analysis in M. brassicae using robust and relatively low cost methods that can be applied to any non-model organism.

  10. Scanning electron microscope measurement of width and shape of 10 nm patterned lines using a JMONSEL-modeled library

    Energy Technology Data Exchange (ETDEWEB)

    Villarrubia, J.S., E-mail: john.villarrubia@nist.gov [Semiconductor and Dimensional Metrology Division, National Institute of Standards and Technology, Gaithersburg, MD 20899 (United States); Vladár, A.E.; Ming, B. [Semiconductor and Dimensional Metrology Division, National Institute of Standards and Technology, Gaithersburg, MD 20899 (United States); Kline, R.J.; Sunday, D.F. [Materials Science and Engineering Division, National Institute of Standards and Technology, Gaithersburg, MD 20899 (United States); Chawla, J.S.; List, S. [Intel Corporation, RA3-252, 5200 NE Elam Young Pkwy, Hillsboro, OR 97124 (United States)

    2015-07-15

    The width and shape of 10 nm to 12 nm wide lithographically patterned SiO{sub 2} lines were measured in the scanning electron microscope by fitting the measured intensity vs. position to a physics-based model in which the lines' widths and shapes are parameters. The approximately 32 nm pitch sample was patterned at Intel using a state-of-the-art pitch quartering process. Their narrow widths and asymmetrical shapes are representative of near-future generation transistor gates. These pose a challenge: the narrowness because electrons landing near one edge may scatter out of the other, so that the intensity profile at each edge becomes width-dependent, and the asymmetry because the shape requires more parameters to describe and measure. Modeling was performed by JMONSEL (Java Monte Carlo Simulation of Secondary Electrons), which produces a predicted yield vs. position for a given sample shape and composition. The simulator produces a library of predicted profiles for varying sample geometry. Shape parameter values are adjusted until interpolation of the library with those values best matches the measured image. Profiles thereby determined agreed with those determined by transmission electron microscopy and critical dimension small-angle x-ray scattering to better than 1 nm.

  11. Selection of single domain antibodies from immune libraries displayed on the surface of E. coli cells with two β-domains of opposite topologies.

    Directory of Open Access Journals (Sweden)

    Valencio Salema

    Full Text Available Screening of antibody (Ab libraries by direct display on the surface of E. coli cells is hampered by the presence of the outer membrane (OM. In this work we demonstrate that the native β-domains of EhaA autotransporter and intimin, two proteins from enterohemorrhagic E. coli O157:H7 (EHEC with opposite topologies in the OM, are effective systems for the display of immune libraries of single domain Abs (sdAbs from camelids (nanobodies or VHH on the surface of E. coli K-12 cells and for the selection of high affinity sdAbs using magnetic cell sorting (MACS. We analyzed the capacity of EhaA and intimin β-domains to display individual sdAbs and sdAb libraries obtained after immunization with the extracellular domain of the translocated intimin receptor from EHEC (TirM(EHEC. We demonstrated that both systems displayed functional sdAbs on the surface of E. coli cells with little proteolysis and cellular toxicity, although E. coli cells displaying sdAbs with the β-domain of intimin showed higher antigen-binding capacity. Both E. coli display libraries were screened for TirM(EHEC binding clones by MACS. High affinity binders were selected by both display systems, although more efficiently with the intimin β-domain. The specificity of the selected clones against TirM(EHEC was demonstrated by flow cytometry of E. coli cells, along with ELISA and surface plasmon resonance with purified sdAbs. Finally, we employed the E. coli cell display systems to provide an estimation of the affinity of the selected sdAb by flow cytometry analysis under equilibrium conditions.

  12. 建立圖書館自動化系統的標準評鑑模式 Building a Standard Evaluative Model for Library Information System

    Directory of Open Access Journals (Sweden)

    Ya-ning Chen

    2002-03-01

    Full Text Available 無Library automation has been developed for 30 years nearly in Taiwan since 1973. after a serious literature review on the topic of library automation evaluation in Taiwan, only several papers have been discussed, but most for them focus on case study. This paper aims to construct a standard evaluative model for library automation system both for selection and usage. The proposed model is composed of four key components by follows: identifying the past and current trends, four facets and related content of evaluation model, evaluation principles, methods and criteria, as well as the model is exemplified into four stages. Finally, additional five issues are raised as a conclusion: cost benefits and efficiency, risk distributed, partnership relation, and librarians' skills and ability.

  13. Modeling Rett Syndrome with Stem Cells

    OpenAIRE

    Walsh, Ryan M.; Hochedlinger, Konrad

    2010-01-01

    The discovery that somatic cells can be reprogrammed into induced pluripotent stem cells (iPSCs) raised the exciting possibility of modeling diseases with patient-specific cells. Marchetto et al. (2010) now use iPSC technology to generate, characterize, and treat an in vitro model for the autism spectrum disorder, Rett syndrome.

  14. The construction of cosmid libraries which can be used to transform eukaryotic cells.

    NARCIS (Netherlands)

    F.G. Grosveld (Frank); T. Lund; E.J. Murray; A.L. Mellor; H.H.M. Dahl; R.A. Flavell (Richard)

    1982-01-01

    textabstractCosmid vectors have been developed which carry selective markers for growth in bacteria (beta lactamase gene) and animal cells (the Herpes Simplex virus thymidine kinase gene, the transposon Tn-5 aminoglycosyl 3' phosphotransferase gene and the E. coli guanine phosphoribosyltransferase g

  15. Implementing a Parallel Matrix Factorization Library on the Cell Broadband Engine

    Directory of Open Access Journals (Sweden)

    B.C. Vishwas

    2009-01-01

    Full Text Available Matrix factorization (or often called decomposition is a frequently used kernel in a large number of applications ranging from linear solvers to data clustering and machine learning. The central contribution of this paper is a thorough performance study of four popular matrix factorization techniques, namely, LU, Cholesky, QR and SVD on the STI Cell broadband engine. The paper explores algorithmic as well as implementation challenges related to the Cell chip-multiprocessor and explains how we achieve near-linear speedup on most of the factorization techniques for a range of matrix sizes. For each of the factorization routines, we identify the bottleneck kernels and explain how we have attempted to resolve the bottleneck and to what extent we have been successful. Our implementations, for the largest data sets that we use, running on a two-node 3.2 GHz Cell BladeCenter (exercising a total of sixteen SPEs, on average, deliver 203.9, 284.6, 81.5, 243.9 and 54.0 GFLOPS for dense LU, dense Cholesky, sparse Cholesky, QR and SVD, respectively. The implementations achieve speedup of 11.2, 12.8, 10.6, 13.0 and 6.2, respectively for dense LU, dense Cholesky, sparse Cholesky, QR and SVD, when running on sixteen SPEs. We discuss the interesting interactions that result from parallelization of the factorization routines on a two-node non-uniform memory access (NUMA Cell Blade cluster.

  16. Introducing an Information-Seeking Skill in a School Library to Students with Autism Spectrum Disorder: Using Video Modeling and Least-to-Most Prompts

    Science.gov (United States)

    Markey, Patricia T.

    2015-01-01

    This study investigated the effectiveness of a video peer modeling and least-to-most prompting intervention in the school library setting, targeting the instructional delivery of an information-literacy skill to students with Autism Spectrum Disorder (ASD). Research studies have evaluated the effectiveness of video-modeling procedures in the…

  17. Cooperation Model and Future Development Between NGO and Libraries%NGO与图书馆的合作模式及发展方向

    Institute of Scientific and Technical Information of China (English)

    张治理

    2011-01-01

    This paper learns successful experience from NGO of developed countries, analyzes NGO' s role and issues in the process of Chinese library development, including cooperation models, NGO' s impact on library service and construction as well as some cooperation issues needed to be solved between NGO and library. On the basis of that, it proposes that the Library Society of China should play an important role in bringing NGO into library community to advance the development of Chinese libraries.%借鉴发达国家NGO的成功经验,分析NGO在中国图书馆发展过程中的状况和问题,包括NGO与图书馆的合作形式、NGO对图书馆建设与服务的影响及NGO与图书馆合作中一些亟待解决的问题。在此基础上,提出问题的解决方法:充分发挥中国图书馆学会的作用,将NGO有效地引入到图书馆事业中来,从而推动中国图书馆事业的发展。

  18. Combining positional scanning peptide libraries, HLA-DR transfectants and bioinformatics to dissect the epitope spectrum of HLA class II cross-restricted CD4+ T cell clones.

    Science.gov (United States)

    Sospedra, Mireia; Zhao, Yingdong; Giulianotti, Marc; Simon, Richard; Pinilla, Clemencia; Martin, Roland

    2010-02-28

    The use of positional scanning peptide libraries in combination with biometrical analysis is one of the few approaches, which allows the identification of stimulatory peptides for T cells of unknown specificity. Despite the successful application of this strategy in different studies, not every T cell is suited for analysis. For as yet unknown reasons some T cells do not recognize these highly complex libraries, and even more importantly the predictive capacity of the current approach shows high variability among individual T cell clones and their TCRs. A number of factors probably contribute to differences in T cell recognition and have to be taken into account in order to overcome these difficulties. Our results suggest that the ability of some T cells to recognize peptides in the context of more than one HLA class II molecule expressed by autologous APCs could diminish the predictive capacity of the approach. In contrast, the use of B cell lines expressing single HLA class II molecules as APCs instead of autologous peripheral blood mononuclear cells markedly improves the capacity to identify target peptides for this type of T cells.

  19. NSUF Irradiated Materials Library

    Energy Technology Data Exchange (ETDEWEB)

    Cole, James Irvin [Idaho National Lab. (INL), Idaho Falls, ID (United States)

    2015-09-01

    The Nuclear Science User Facilities has been in the process of establishing an innovative Irradiated Materials Library concept for maximizing the value of previous and on-going materials and nuclear fuels irradiation test campaigns, including utilization of real-world components retrieved from current and decommissioned reactors. When the ATR national scientific user facility was established in 2007 one of the goals of the program was to establish a library of irradiated samples for users to access and conduct research through competitively reviewed proposal process. As part of the initial effort, staff at the user facility identified legacy materials from previous programs that are still being stored in laboratories and hot-cell facilities at the INL. In addition other materials of interest were identified that are being stored outside the INL that the current owners have volunteered to enter into the library. Finally, over the course of the last several years, the ATR NSUF has irradiated more than 3500 specimens as part of NSUF competitively awarded research projects. The Logistics of managing this large inventory of highly radioactive poses unique challenges. This document will describe materials in the library, outline the policy for accessing these materials and put forth a strategy for making new additions to the library as well as establishing guidelines for minimum pedigree needed to be included in the library to limit the amount of material stored indefinitely without identified value.

  20. Cell Division in the Light of Modeling.

    Science.gov (United States)

    Bellaïche, Yohanns

    2016-09-26

    Theoretical modeling is central to elucidating underlying principles of emergent properties of complex systems. In cell and developmental biology, the last 15 years have witnessed a convergence of empirical and modeling approaches for fresh perspectives. The role of cell division in coordinating size, shape, and fate in particular illustrates the ever-growing impact of modeling.

  1. Cloud Computing and Your Library

    Science.gov (United States)

    Mitchell, Erik T.

    2010-01-01

    One of the first big shifts in how libraries manage resources was the move from print-journal purchasing models to database-subscription and electronic-journal purchasing models. Libraries found that this transition helped them scale their resources and provide better service just by thinking a bit differently about their services. Likewise,…

  2. Academic Libraries

    Science.gov (United States)

    Library Journal, 1970

    1970-01-01

    Building data is given for the following academic libraries: (1) Rosary College, River Forest, Illinois; (2) Abilene Christian College, Abilene, Texas; (3) University of California, San Diego, La Jolla, California. (MF)

  3. Architectural Optimization of Digital Libraries

    Science.gov (United States)

    Biser, Aileen O.

    1998-01-01

    This work investigates performance and scaling issues relevant to large scale distributed digital libraries. Presently, performance and scaling studies focus on specific implementations of production or prototype digital libraries. Although useful information is gained to aid these designers and other researchers with insights to performance and scaling issues, the broader issues relevant to very large scale distributed libraries are not addressed. Specifically, no current studies look at the extreme or worst case possibilities in digital library implementations. A survey of digital library research issues is presented. Scaling and performance issues are mentioned frequently in the digital library literature but are generally not the focus of much of the current research. In this thesis a model for a Generic Distributed Digital Library (GDDL) and nine cases of typical user activities are defined. This model is used to facilitate some basic analysis of scaling issues. Specifically, the calculation of Internet traffic generated for different configurations of the study parameters and an estimate of the future bandwidth needed for a large scale distributed digital library implementation. This analysis demonstrates the potential impact a future distributed digital library implementation would have on the Internet traffic load and raises questions concerning the architecture decisions being made for future distributed digital library designs.

  4. Successful identification of novel agents to control infectious diseases from screening mixture-based peptide combinatorial libraries in complex cell-based bioassays.

    Science.gov (United States)

    Boggiano, César; Reixach, Natàlia; Pinilla, Clemencia; Blondelle, Sylvie E

    2003-01-01

    Mixture-based peptide synthetic combinatorial libraries (SCLs) represent a valuable source for the development of novel agents to control infectious diseases. Indeed, a number of studies have now proven the ability of identifying active peptides from libraries composed of thousands to millions of peptides in cell-based biosystems of varying complexity. Furthermore, progressing knowledge on the importance of endogenous peptides in various immune responses lead to a regain in importance for peptides as potential therapeutic agents. This article is aimed at providing recent studies in our laboratory for the development of antimicrobial or antiviral peptides derived from mixture-based SCLs using cell-based assays, as well as a short review of the importance of such peptides in the control of infectious diseases. Furthermore, the use of positional scanning (PS) SCL-based biometrical analyses for the identification of native optimal epitopes specific to HIV-1 proteins is also presented.

  5. METABOLIC MODELLING IN THE DEVELOPMENT OF CELL FACTORIES BY SYNTHETIC BIOLOGY

    Directory of Open Access Journals (Sweden)

    Paula Jouhten

    2012-10-01

    Full Text Available Cell factories are commonly microbial organisms utilized for bioconversion of renewable resources to bulk or high value chemicals. Introduction of novel production pathways in chassis strains is the core of the development of cell factories by synthetic biology. Synthetic biology aims to create novel biological functions and systems not found in nature by combining biology with engineering. The workflow of the development of novel cell factories with synthetic biology is ideally linear which will be attainable with the quantitative engineering approach, high-quality predictive models, and libraries of well-characterized parts. Different types of metabolic models, mathematical representations of metabolism and its components, enzymes and metabolites, are useful in particular phases of the synthetic biology workflow. In this minireview, the role of metabolic modelling in synthetic biology will be discussed with a review of current status of compatible methods and models for the in silico design and quantitative evaluation of a cell factory.

  6. Microcomputers and School Libraries in the United Kingdom: Part I.

    Science.gov (United States)

    Pain-Lewins, Helen; Watson, Linda

    1990-01-01

    Discussion of the use of microcomputers in school libraries in the United Kingdom focuses on three models of school library computerization: (1) a library management-centered model, which addresses routine library operations; (2) a pupil-centered information skills model; and (3) a curriculum-centered model, which furthers pupil learning in…

  7. Modeling the Shapes of Cells

    Science.gov (United States)

    Garimella, Umadevi I.; Robertson, Belinda M.

    2015-01-01

    A solid understanding of the structure and function of cells can help establish the foundation for learning advanced concepts in the biological sciences. The concept of the cell is introduced in middle school life science courses and is continued at the undergraduate level in college (NRC 2012; Reece et al. 2014). Cells are introduced to students…

  8. Memory B cells in mouse models.

    Science.gov (United States)

    Bergmann, B; Grimsholm, O; Thorarinsdottir, K; Ren, W; Jirholt, P; Gjertsson, I; Mårtensson, I-L

    2013-08-01

    One of the principles behind vaccination, as shown by Edward Jenner in 1796, and host protection is immunological memory, and one of the cells central to this is the antigen-experienced memory B cell that responds rapidly upon re-exposure to the initiating antigen. Classically, memory B cells have been defined as progenies of germinal centre (GC) B cells expressing isotype-switched and substantially mutated B cell receptors (BCRs), that is, membrane-bound antibodies. However, it has become apparent over the last decade that this is not the only pathway to B cell memory. Here, we will discuss memory B cells in mice, as defined by (1) cell surface markers; (2) multiple layers; (3) formation in a T cell-dependent and either GC-dependent or GC-independent manner; (4) formation in a T cell-independent fashion. Lastly, we will touch upon memory B cells in; (5) mouse models of autoimmune diseases.

  9. 高校图书馆学科服务模式探讨%Discussion on Academic Library Subject Service Model

    Institute of Scientific and Technical Information of China (English)

    潘可

    2012-01-01

    Subject service is an advanced concept to run a library and a new service model for international library community.With the development of user information needs and inforamtion environment as well as the requirements of self-development for libraries,subject service is a long-term trend for academic libraries.Through the research on current subject services implemented in Hubei academic libraries,the thesis indicates that establishing a subject team is a suitable subject service model for our academic libraies.%学科服务是国际图书馆界的一种先进的办馆理念和全新服务模式。随着用户信息需求、信息环境的变化以及图书馆自身发展的要求,图书馆实行学科服务是一个长期的趋势。通过湖北省高校图书馆学科服务的调研分析,认为学科团队是适合我国高校图书馆发展现状的学科服务模式。

  10. Screening and identification of a novel target specific for hepatoma cell line HepG2 from the FliTrx bacterial peptide library

    Institute of Scientific and Technical Information of China (English)

    Wenhan Li; Ping Lei; Bing Yu; Sha Wu; Jilin Peng; Xiaoping Zhao; Huffen Zhu; Michael Kirschfink; Guanxin Shen

    2008-01-01

    To explore new targets for hepatoma research, we used a surface display library to screen novel tumor cell-specific peptides. The bacterial FliTrx system was screened with living normal liver cell line L02 and hepatoma cell line HepG2 successively to search for hepatoma-specific peptides. Three clones (Hep1, Hep2, and Hep3) were identified to be specific to HepG2 compared with L02 and other cancer cell lines.Three-dimensional structural prediction proved that peptides inserted into the active site of Escherichia coli thioredoxin (TrxA) formed certain loop structures protruding out of the surface. Western blot analysis showed that FliC/TrxA-pepfide fusion proteins could be directly used to detect HepG2 cells.Three different FliC/TrxA-peptide fusion proteins targeted the same molecule, at approximately 140 kDa, on HepG2 cells.This work presented for the first time the application of the FliTrx library in screening living cells. Three peptides were obtained that could be potential candidates for targeted liver cancer therapy.

  11. Modelling the exposure to chemicals for risk assessment: a comprehensive library of multimedia and PBPK models for integration, prediction, uncertainty and sensitivity analysis - the MERLIN-Expo tool.

    Science.gov (United States)

    Ciffroy, P; Alfonso, B; Altenpohl, A; Banjac, Z; Bierkens, J; Brochot, C; Critto, A; De Wilde, T; Fait, G; Fierens, T; Garratt, J; Giubilato, E; Grange, E; Johansson, E; Radomyski, A; Reschwann, K; Suciu, N; Tanaka, T; Tediosi, A; Van Holderbeke, M; Verdonck, F

    2016-10-15

    MERLIN-Expo is a library of models that was developed in the frame of the FP7 EU project 4FUN in order to provide an integrated assessment tool for state-of-the-art exposure assessment for environment, biota and humans, allowing the detection of scientific uncertainties at each step of the exposure process. This paper describes the main features of the MERLIN-Expo tool. The main challenges in exposure modelling that MERLIN-Expo has tackled are: (i) the integration of multimedia (MM) models simulating the fate of chemicals in environmental media, and of physiologically based pharmacokinetic (PBPK) models simulating the fate of chemicals in human body. MERLIN-Expo thus allows the determination of internal effective chemical concentrations; (ii) the incorporation of a set of functionalities for uncertainty/sensitivity analysis, from screening to variance-based approaches. The availability of such tools for uncertainty and sensitivity analysis aimed to facilitate the incorporation of such issues in future decision making; (iii) the integration of human and wildlife biota targets with common fate modelling in the environment. MERLIN-Expo is composed of a library of fate models dedicated to non biological receptor media (surface waters, soils, outdoor air), biological media of concern for humans (several cultivated crops, mammals, milk, fish), as well as wildlife biota (primary producers in rivers, invertebrates, fish) and humans. These models can be linked together to create flexible scenarios relevant for both human and wildlife biota exposure. Standardized documentation for each model and training material were prepared to support an accurate use of the tool by end-users. One of the objectives of the 4FUN project was also to increase the confidence in the applicability of the MERLIN-Expo tool through targeted realistic case studies. In particular, we aimed at demonstrating the feasibility of building complex realistic exposure scenarios and the accuracy of the

  12. A semi-empirical library of galaxy spectra for Gaia classification based on SDSS data and PEGASE models

    CERN Document Server

    Tsalmantza, P; Kontizas, M; Bailer-Jones, C A L; Rocca-Volmerange, B; Livanou, E; Bellas-Velidis, I; Kontizas, E; Vallenari, A

    2011-01-01

    Aims:This paper is the third in a series implementing a classification system for Gaia observations of unresolved galaxies. The system makes use of template galaxy spectra in order to determine spectral classes and estimate intrinsic astrophysical parameters. In previous work we used synthetic galaxy spectra produced by PEGASE.2 code to simulate Gaia observations and to test the performance of Support Vector Machine (SVM) classifiers and parametrizers. Here we produce a semi-empirical library of galaxy spectra by fitting SDSS spectra with the previously produced synthetic libraries. We present (1) the semi-empirical library of galaxy spectra, (2) a comparison between the observed and synthetic spectra, and (3) first results of claassification and parametrization experiments with simulated Gaia spectrophotometry of this library. Methods: We use chi2-fitting to fit SDSS galaxy spectra with the synthetic library in order to construct a semi-empirical library of galaxy spectra in which (1) the real spectra are ex...

  13. Stochastic Gompertz model of tumour cell growth.

    Science.gov (United States)

    Lo, C F

    2007-09-21

    In this communication, based upon the deterministic Gompertz law of cell growth, a stochastic model in tumour growth is proposed. This model takes account of both cell fission and mortality too. The corresponding density function of the size of the tumour cells obeys a functional Fokker--Planck equation which can be solved analytically. It is found that the density function exhibits an interesting "multi-peak" structure generated by cell fission as time evolves. Within this framework the action of therapy is also examined by simply incorporating a therapy term into the deterministic cell growth term.

  14. Stellar population synthesis models between 2.5 and 5 {\\mu}m based on the empirical IRTF stellar library

    CERN Document Server

    Röck, B; Peletier, R F; Knapen, J H; Falcón-Barroso, J

    2015-01-01

    We present the first single-burst stellar population models in the infrared wavelength range between 2.5 and 5 {\\mu}m which are exclusively based on empirical stellar spectra. Our models take as input 180 spectra from the stellar IRTF (Infrared Telescope Facility) library. Our final single-burst stellar population models are calculated based on two different sets of isochrones and various types of initial mass functions of different slopes, ages larger than 1 Gyr and metallicities between [Fe/H] = -0.70 and 0.26. They are made available online to the scientific community on the MILES web page. We analyse the behaviour of the Spitzer [3.6]-[4.5] colour calculated from our single stellar population models and find only slight dependences on both metallicity and age. When comparing to the colours of observed early-type galaxies, we find a good agreement for older, more massive galaxies that resemble a single-burst population. Younger, less massive and more metal-poor galaxies show redder colours with respect to ...

  15. America's Star Libraries

    Science.gov (United States)

    Lyons, Ray; Lance, Keith Curry

    2009-01-01

    "Library Journal"'s new national rating of public libraries, the "LJ" Index of Public Library Service, identifies 256 "star" libraries. It rates 7,115 public libraries. The top libraries in each group get five, four, or three Michelin guide-like stars. All included libraries, stars or not, can use their scores to learn from their peers and improve…

  16. Active Gel Model of Amoeboid Cell Motility

    CERN Document Server

    Callan-Jones, A C

    2013-01-01

    We develop a model of amoeboid cell motility based on active gel theory. Modeling the motile apparatus of a eukaryotic cell as a confined layer of finite length of poroelastic active gel permeated by a solvent, we first show that, due to active stress and gel turnover, an initially static and homogeneous layer can undergo a contractile-type instability to a polarized moving state in which the rear is enriched in gel polymer. This agrees qualitatively with motile cells containing an actomyosin-rich uropod at their rear. We find that the gel layer settles into a steadily moving, inhomogeneous state at long times, sustained by a balance between contractility and filament turnover. In addition, our model predicts an optimal value of the gel-susbstrate adhesion leading to maximum layer speed, in agreement with cell motility assays. The model may be relevant to motility of cells translocating in complex, confining environments that can be mimicked experimentally by cell migration through microchannels.

  17. Mathematical model of electrotaxis in osteoblastic cells

    NARCIS (Netherlands)

    Vanegas-Acosta, J.C.; Garzón-Alvarado, D.A.; Zwamborn, A.P.M.

    2012-01-01

    Electrotaxis is the cell migration in the presence of an electric field (EF). This migration is parallel to the EF vector and overrides chemical migration cues. In this paper we introduce a mathematical model for the electrotaxis in osteoblastic cells. The model is evaluated using different EF stren

  18. Vascular disease modeling using induced pluripotent stem cells: Focus in Hutchinson-Gilford Progeria Syndrome.

    Science.gov (United States)

    Pitrez, P R; Rosa, S C; Praça, C; Ferreira, L

    2016-05-06

    Induced pluripotent stem cells (iPSCs) represent today an invaluable tool to create disease cell models for modeling and drug screening. Several lines of iPSCs have been generated in the last 7 years that changed the paradigm for studying diseases and the discovery of new drugs to treat them. In this article we focus our attention to vascular diseases in particular Hutchinson-Gilford Progeria Syndrome (HGPS), a devastating premature aging disease caused by a mutation in the lamin A gene. In general, patients die because of myocardial infarction or stroke. Because the patients are fragile the isolation of a particular type of cells is very difficult. Therefore in the last 5 years, researchers have used cells derived from iPSCs to model aspects of the HGPS and to screen libraries of chemicals to retard or treat the disease.

  19. Cytoview: Development of a cell modelling framework

    Indian Academy of Sciences (India)

    Prashant Khodade; Samta Malhotra; Nirmal Kumar; M Sriram Iyengar; N Balakrishnan; Nagasuma Chandra

    2007-08-01

    The biological cell, a natural self-contained unit of prime biological importance, is an enormously complex machine that can be understood at many levels. A higher-level perspective of the entire cell requires integration of various features into coherent, biologically meaningful descriptions. There are some efforts to model cells based on their genome, proteome or metabolome descriptions. However, there are no established methods as yet to describe cell morphologies, capture similarities and differences between different cells or between healthy and disease states. Here we report a framework to model various aspects of a cell and integrate knowledge encoded at different levels of abstraction, with cell morphologies at one end to atomic structures at the other. The different issues that have been addressed are ontologies, feature description and model building. The framework describes dotted representations and tree data structures to integrate diverse pieces of data and parametric models enabling size, shape and location descriptions. The framework serves as a first step in integrating different levels of data available for a biological cell and has the potential to lead to development of computational models in our pursuit to model cell structure and function, from which several applications can flow out.

  20. Malaria modeling: In vitro stem cells vs in vivo models

    Institute of Scientific and Technical Information of China (English)

    Florian; Noulin

    2016-01-01

    The recent development of stem cell research and the possibility of generating cells that can be stably and permanently modified in their genome open a broad horizon in the world of in vitro modeling. The malaria field is gaining new opportunities from this importantbreakthrough and novel tools were adapted and opened new frontiers for malaria research. In addition to the new in vitro systems, in recent years there were also significant advances in the development of new animal models that allows studying the entire cell cycle of human malaria. In this paper, we review the different protocols available to study human Plasmodium species either by using stem cell or alternative animal models.

  1. Malaria modeling: In vitro stem cells vs in vivo models.

    Science.gov (United States)

    Noulin, Florian

    2016-03-26

    The recent development of stem cell research and the possibility of generating cells that can be stably and permanently modified in their genome open a broad horizon in the world of in vitro modeling. The malaria field is gaining new opportunities from this important breakthrough and novel tools were adapted and opened new frontiers for malaria research. In addition to the new in vitro systems, in recent years there were also significant advances in the development of new animal models that allows studying the entire cell cycle of human malaria. In this paper, we review the different protocols available to study human Plasmodium species either by using stem cell or alternative animal models.

  2. Synthesis of dihydropyrimidin-2-one/thione library and cytotoxic activity against the human U138-MG and Rat C6 glioma cell lines

    Energy Technology Data Exchange (ETDEWEB)

    Canto, Romulo F.S.; Eifler-Lima, Vera Lucia [Universidade Federal do Rio Grande do Sul (LaSOM/PPGCF/UFRGS), Porto Alegre, RS (Brazil). Programa de Pos Graduacao em Ciencias Farmaceuticas. Lab. de Sintese Organica; Bernardi, Andressa; Battastini, Ana Maria O. [Universidade Federal do Rio Grande do Sul (ICBS/UFRGS), Porto Alegre, RS (Brazil). Inst. de Ciencias Basicas da Saude; Russowsky, Dennis [Universidade Federal do Rio Grande do Sul (IQ/UFRGS), Porto Alegre, RS (Brazil). Inst. de Quimica

    2011-07-01

    Two series of 4-aryl-3,4-dihydropyrimidin-2(1H)-(thio)ones including monastrol (1a), have been synthesized by an environment-friendly methodology based on the combined use of citric acid or oxalic acid and TEOF (triethylorthoformate). The library was evaluated as inhibitor of cell proliferation on two glioma cell lines (human-U138-MG and Rat-C6). The compounds derived from thiourea 1f and 1d were more cytotoxic than monastrol. The compound derived from urea 2d showed the highest cytotoxic activity among the analyzed compounds. (author)

  3. Stochastic biophysical modeling of irradiated cells

    CERN Document Server

    Fornalski, Krzysztof Wojciech

    2014-01-01

    The paper presents a computational stochastic model of virtual cells irradiation, based on Quasi-Markov Chain Monte Carlo method and using biophysical input. The model is based on a stochastic tree of probabilities for each cell of the entire colony. Biophysics of the cells is described by probabilities and probability distributions provided as the input. The adaptation of nucleation and catastrophe theories, well known in physics, yields sigmoidal relationships for carcinogenic risk as a function of the irradiation. Adaptive response and bystander effect, incorporated into the model, improves its application. The results show that behavior of virtual cells can be successfully modeled, e.g. cancer transformation, creation of mutations, radioadaptation or radiotherapy. The used methodology makes the model universal and practical for simulations of general processes. Potential biophysical curves and relationships are also widely discussed in the paper. However, the presented theoretical model does not describe ...

  4. From structure from motion to historical building information modeling: populating a semantic-aware library of architectural elements

    Science.gov (United States)

    Santagati, Cettina; Lo Turco, Massimiliano

    2017-01-01

    In recent years, we have witnessed a huge diffusion of building information modeling (BIM) approaches in the field of architectural design, although very little research has been undertaken to explore the value, criticalities, and advantages attributable to the application of these methodologies in the cultural heritage domain. Furthermore, the last developments in digital photogrammetry lead to the easy generation of reliable low-cost three-dimensional textured models that could be used in BIM platforms to create semantic-aware objects that could compose a specific library of historical architectural elements. In this case, the transfer between the point cloud and its corresponding parametric model is not so trivial and the level of geometrical abstraction could not be suitable with the scope of the BIM. The aim of this paper is to explore and retrace the milestone works on this crucial topic in order to identify the unsolved issues and to propose and test a unique and simple workflow practitioner centered and based on the use of the latest available solutions for point cloud managing into commercial BIM platforms.

  5. Challenges in structural approaches to cell modeling.

    Science.gov (United States)

    Im, Wonpil; Liang, Jie; Olson, Arthur; Zhou, Huan-Xiang; Vajda, Sandor; Vakser, Ilya A

    2016-07-31

    Computational modeling is essential for structural characterization of biomolecular mechanisms across the broad spectrum of scales. Adequate understanding of biomolecular mechanisms inherently involves our ability to model them. Structural modeling of individual biomolecules and their interactions has been rapidly progressing. However, in terms of the broader picture, the focus is shifting toward larger systems, up to the level of a cell. Such modeling involves a more dynamic and realistic representation of the interactomes in vivo, in a crowded cellular environment, as well as membranes and membrane proteins, and other cellular components. Structural modeling of a cell complements computational approaches to cellular mechanisms based on differential equations, graph models, and other techniques to model biological networks, imaging data, etc. Structural modeling along with other computational and experimental approaches will provide a fundamental understanding of life at the molecular level and lead to important applications to biology and medicine. A cross section of diverse approaches presented in this review illustrates the developing shift from the structural modeling of individual molecules to that of cell biology. Studies in several related areas are covered: biological networks; automated construction of three-dimensional cell models using experimental data; modeling of protein complexes; prediction of non-specific and transient protein interactions; thermodynamic and kinetic effects of crowding; cellular membrane modeling; and modeling of chromosomes. The review presents an expert opinion on the current state-of-the-art in these various aspects of structural modeling in cellular biology, and the prospects of future developments in this emerging field.

  6. Literature promotion in Public Libraries

    DEFF Research Database (Denmark)

    Kann-Christensen, Nanna; Balling, Gitte

    2011-01-01

    This article discusses a model that can be used in order to analyse notions on literature promotion in public libraries. The model integrates different issues which interact with how literature promotion is understood and thought of in public libraries. Besides cultural policy we regard the logics...... of new public management (NPM) and professional logics in the field of public libraries. Cultural policy along with the identification of underlying logics present among politicians, government officials, managers and librarians/promoters of literature, play an important part in creating an understanding...... of literature promotion in Danish libraries. Thus the basic premise for the development of the model is that cultural policy (Policy) has an important influence on notions on literature promotion and other activities in public libraries, but that cultural policy must be seen in some kind of interaction...

  7. Retinal Cell Degeneration in Animal Models

    OpenAIRE

    Masayuki Niwa; Hitomi Aoki; Akihiro Hirata; Hiroyuki Tomita; Green, Paul G.; Akira Hara

    2016-01-01

    The aim of this review is to provide an overview of various retinal cell degeneration models in animal induced by chemicals (N-methyl-d-aspartate- and CoCl2-induced), autoimmune (experimental autoimmune encephalomyelitis), mechanical stress (optic nerve crush-induced, light-induced) and ischemia (transient retinal ischemia-induced). The target regions, pathology and proposed mechanism of each model are described in a comparative fashion. Animal models of retinal cell degeneration provide insi...

  8. IDENTIFICATION OF ACTIVE BACTERIAL COMMUNITIES IN A MODEL DRINKING WATER BIOFILM SYSTEM USING 16S RRNA-BASED CLONE LIBRARIES

    Science.gov (United States)

    Recent phylogenetic studies have used DNA as the target molecule for the development of environmental 16S rDNA clone libraries. As DNA may persist in the environment, DNA-based libraries cannot be used to identify metabolically active bacteria in water systems. In this study, a...

  9. The Dreyfus Model of Skill Acquisition: A Career Development Framework for Succession Planning and Management in Academic Libraries

    Science.gov (United States)

    Hall-Ellis, Sylvia D.; Grealy, Deborah S.

    2013-01-01

    Succession planning and management are critical parts of strategic planning for libraries in the twenty-first century. Making certain that the right people are in place with the prerequisite training and experience to assume leadership positions is a vital part of strategic planning and talent management in libraries that rely on teams of people…

  10. One-Step Recovery of scFv Clones from High-Throughput Sequencing-Based Screening of Phage Display Libraries Challenged to Cells Expressing Native Claudin-1

    Directory of Open Access Journals (Sweden)

    Emanuele Sasso

    2015-01-01

    Full Text Available Expanding the availability of monoclonal antibodies interfering with hepatitis C virus infection of hepatocytes is an active field of investigation within medical biotechnologies, to prevent graft reinfection in patients subjected to liver transplantation and to overcome resistances elicited by novel antiviral drugs. In this paper, we describe a complete pipeline for screening of phage display libraries of human scFvs against native Claudin-1, a tight-junction protein involved in hepatitis C virus infection, expressed on the cell surface of human hepatocytes. To this aim, we implemented a high-throughput sequencing approach for library screening, followed by a simple and effective strategy to recover active binder clones from enriched sublibraries. The recovered clones were successfully converted to active immunoglobulins, thus demonstrating the effectiveness of the whole procedure. This novel approach can guarantee rapid and cheap isolation of antibodies for virtually any native antigen involved in human diseases, for therapeutic and/or diagnostic applications.

  11. A Library on the Robot Operating System (ROS) for Model Predictive Control implementation

    OpenAIRE

    Diaz Martinez, Rene Alexander

    2014-01-01

    Model Predictive Control is a receding horizon control technique that is based on making predictions in the future for a determined number of steps, using a model of the system to be controlled. This thesis report is centered around Model Predictive Control (MPC) and its application. In this thesis, there are two main goals: firstly, is the development of a software structure that uses the properties of Object Oriented Programming (OOP) and the Robot Operative System (ROS) to ease the use of ...

  12. Testing Library Specifications by Verifying Conformance Tests

    DEFF Research Database (Denmark)

    Kiniry, Joseph Roland; Zimmerman, Daniel; Hyland, Ralph

    2012-01-01

    the Formal CTD Process (FCTD), to address this problem. Although FCTD is primarily targeted toward those who write Java libraries (or specifications for existing Java libraries) using the Java Modeling Language (JML), its techniques are broadly applicable. The key to FCTD is its novel usage of library......Formal specifications of standard libraries are necessary when statically verifying software that uses those libraries. Library specifications must be both correct, accurately reflecting library behavior, and useful, describing library behavior in sufficient detail to allow static verification...... of client programs. Specication and verification researchers regularly face the question of whether the library specications we use are correct and useful, and we have collectively provided no good answers. Over the past few years we have created and refined a software engineering process, which we call...

  13. Mathematical modeling of polymer electrolyte fuel cells

    Science.gov (United States)

    Sousa, Ruy; Gonzalez, Ernesto R.

    Fuel cells with a polymer electrolyte membrane have been receiving more and more attention. Modeling plays an important role in the development of fuel cells. In this paper, the state-of-the-art regarding modeling of fuel cells with a polymer electrolyte membrane is reviewed. Modeling has allowed detailed studies concerning the development of these cells, e.g. in discussing the electrocatalysis of the reactions and the design of water-management schemes to cope with membrane dehydration. Two-dimensional models have been used to represent reality, but three-dimensional models can cope with some important additional aspects. Consideration of two-phase transport in the air cathode of a proton exchange membrane fuel cell seems to be very appropriate. Most fuel cells use hydrogen as a fuel. Besides safety concerns, there are problems associated with production, storage and distribution of this fuel. Methanol, as a liquid fuel, can be the solution to these problems and direct methanol fuel cells (DMFCs) are attractive for several applications. Mass transport is a factor that may limit the performance of the cell. Adsorption steps may be coupled to Tafel kinetics to describe methanol oxidation and methanol crossover must also be taken into account. Extending the two-phase approach to the DMFC modeling is a recent, important point.

  14. Planetary Image Geometry Library

    Science.gov (United States)

    Deen, Robert C.; Pariser, Oleg

    2010-01-01

    The Planetary Image Geometry (PIG) library is a multi-mission library used for projecting images (EDRs, or Experiment Data Records) and managing their geometry for in-situ missions. A collection of models describes cameras and their articulation, allowing application programs such as mosaickers, terrain generators, and pointing correction tools to be written in a multi-mission manner, without any knowledge of parameters specific to the supported missions. Camera model objects allow transformation of image coordinates to and from view vectors in XYZ space. Pointing models, specific to each mission, describe how to orient the camera models based on telemetry or other information. Surface models describe the surface in general terms. Coordinate system objects manage the various coordinate systems involved in most missions. File objects manage access to metadata (labels, including telemetry information) in the input EDRs and RDRs (Reduced Data Records). Label models manage metadata information in output files. Site objects keep track of different locations where the spacecraft might be at a given time. Radiometry models allow correction of radiometry for an image. Mission objects contain basic mission parameters. Pointing adjustment ("nav") files allow pointing to be corrected. The object-oriented structure (C++) makes it easy to subclass just the pieces of the library that are truly mission-specific. Typically, this involves just the pointing model and coordinate systems, and parts of the file model. Once the library was developed (initially for Mars Polar Lander, MPL), adding new missions ranged from two days to a few months, resulting in significant cost savings as compared to rewriting all the application programs for each mission. Currently supported missions include Mars Pathfinder (MPF), MPL, Mars Exploration Rover (MER), Phoenix, and Mars Science Lab (MSL). Applications based on this library create the majority of operational image RDRs for those missions. A

  15. The Evolution of the Theory of Library x.0 Reasoning and Model Construction%关于Library x.0理论的演变推理与模型构建

    Institute of Scientific and Technical Information of China (English)

    路茂林

    2011-01-01

    通过对从Library 1.0到Library 2.0、Library x.0的演变过程,提出了图书馆球行关系模型,并在此基础上通过空间拓展模型对Library 1.0到Library x.0的理论作了演变推理,构建出Library 2.0理论的未来发展趋势--Library x.0,并提出了Library x.0的涵义,为Library 2.0理论的延续作了启发性的研究.

  16. Intelligent Libraries and Apomediators: Distinguishing between Library 3.0 and Library 2.0

    Science.gov (United States)

    Kwanya, Tom; Stilwell, Christine; Underwood, Peter G.

    2013-01-01

    Using the "point oh" naming system for developments in librarianship is attracting debate about its appropriateness, basis and syntax and the meaning and potential of Library 2.0. Now a new term, Library 3.0, has emerged. Is there is any significant difference between the two models? Using documentary analysis to explore the terms, the…

  17. Evaluación de las bibliotecas digitales: su teoría y modelos Theory and models of assessment of digital libraries

    Directory of Open Access Journals (Sweden)

    Araceli Noguez-Ortiz

    2010-12-01

    Full Text Available Para entender cabalmente la biblioteca digital se requiere no sólo captar su concepto y caracterización, también es necesario relacionarla con los conceptos teóricos de modelo y evaluación; el estudio combinado de estas dos facetas nos lleva a comprender la combinación precisa: teoría de los modelos, modelos de evaluación y por último al modelo de evaluación de las bibliotecas digitales.To fully understand the digital library, one must grasp not only the concept and its features, but also relate it to theoretical modeling and assessment concepts. The study of these two characteristics helps provide an understanding of how modeling theory and assessment models combine to yield the specific evaluation model for digital libraries.

  18. Medicine's Library Lifeline.

    Science.gov (United States)

    Shipman, Jean; Homan, Michael

    2003-01-01

    Discusses how librarians in the new role of "informationist" can help doctors and researches of medical information. Describes existing models of the informationist; potential benefits of working across professional boundaries outside the library; professional requirements; and unresolved issues for the new role, including potential licensing…

  19. The DSET Tool Library: A software approach to enable data exchange between climate system models

    Energy Technology Data Exchange (ETDEWEB)

    McCormick, J. [Lawrence Livermore National Lab., CA (United States)

    1994-12-01

    Climate modeling is a computationally intensive process. Until recently computers were not powerful enough to perform the complex calculations required to simulate the earth`s climate. As a result standalone programs were created that represent components of the earth`s climate (e.g., Atmospheric Circulation Model). However, recent advances in computing, including massively parallel computing, make it possible to couple the components forming a complete earth climate simulation. The ability to couple different climate model components will significantly improve our ability to predict climate accurately and reliably. Historically each major component of the coupled earth simulation is a standalone program designed independently with different coordinate systems and data representations. In order for two component models to be coupled, the data of one model must be mapped to the coordinate system of the second model. The focus of this project is to provide a general tool to facilitate the mapping of data between simulation components, with an emphasis on using object-oriented programming techniques to provide polynomial interpolation, line and area weighting, and aggregation services.

  20. Quantifying and resolving multiple vector transformants in S. cerevisiae plasmid libraries

    Directory of Open Access Journals (Sweden)

    Gray Elizabeth C

    2009-11-01

    Full Text Available Abstract Background In addition to providing the molecular machinery for transcription and translation, recombinant microbial expression hosts maintain the critical genotype-phenotype link that is essential for high throughput screening and recovery of proteins encoded by plasmid libraries. It is known that Escherichia coli cells can be simultaneously transformed with multiple unique plasmids and thusly complicate recombinant library screening experiments. As a result of their potential to yield misleading results, bacterial multiple vector transformants have been thoroughly characterized in previous model studies. In contrast to bacterial systems, there is little quantitative information available regarding multiple vector transformants in yeast. Saccharomyces cerevisiae is the most widely used eukaryotic platform for cell surface display, combinatorial protein engineering, and other recombinant library screens. In order to characterize the extent and nature of multiple vector transformants in this important host, plasmid-born gene libraries constructed by yeast homologous recombination were analyzed by DNA sequencing. Results It was found that up to 90% of clones in yeast homologous recombination libraries may be multiple vector transformants, that on average these clones bear four or more unique mutant genes, and that these multiple vector cells persist as a significant proportion of library populations for greater than 24 hours during liquid outgrowth. Both vector concentration and vector to insert ratio influenced the library proportion of multiple vector transformants, but their population frequency was independent of transformation efficiency. Interestingly, the average number of plasmids born by multiple vector transformants did not vary with their library population proportion. Conclusion These results highlight the potential for multiple vector transformants to dominate yeast libraries constructed by homologous recombination. The

  1. DOLIB: Distributed Object Library

    Energy Technology Data Exchange (ETDEWEB)

    D`Azevedo, E.F.; Romine, C.H.

    1994-10-01

    This report describes the use and implementation of DOLIB (Distributed Object Library), a library of routines that emulates global or virtual shared memory on Intel multiprocessor systems. Access to a distributed global array is through explicit calls to gather and scatter. Advantages of using DOLIB include: dynamic allocation and freeing of huge (gigabyte) distributed arrays, both C and FORTRAN callable interfaces, and the ability to mix shared-memory and message-passing programming models for ease of use and optimal performance. DOLIB is independent of language and compiler extensions and requires no special operating system support. DOLIB also supports automatic caching of read-only data for high performance. The virtual shared memory support provided in DOLIB is well suited for implementing Lagrangian particle tracking techniques. We have also used DOLIB to create DONIO (Distributed Object Network I/O Library), which obtains over a 10-fold improvement in disk I/O performance on the Intel Paragon.

  2. On a poroviscoelastic model for cell crawling.

    Science.gov (United States)

    Kimpton, L S; Whiteley, J P; Waters, S L; Oliver, J M

    2015-01-01

    In this paper a minimal, one-dimensional, two-phase, viscoelastic, reactive, flow model for a crawling cell is presented. Two-phase models are used with a variety of constitutive assumptions in the literature to model cell motility. We use an upper-convected Maxwell model and demonstrate that even the simplest of two-phase, viscoelastic models displays features relevant to cell motility. We also show care must be exercised in choosing parameters for such models as a poor choice can lead to an ill-posed problem. A stability analysis reveals that the initially stationary, spatially uniform strip of cytoplasm starts to crawl in response to a perturbation which breaks the symmetry of the network volume fraction or network stress. We also demonstrate numerically that there is a steady travelling-wave solution in which the crawling velocity has a bell-shaped dependence on adhesion strength, in agreement with biological observation.

  3. On a poroviscoelastic model for cell crawling

    KAUST Repository

    Kimpton, L. S.

    2014-02-08

    In this paper a minimal, one-dimensional, two-phase, viscoelastic, reactive, flow model for a crawling cell is presented. Two-phase models are used with a variety of constitutive assumptions in the literature to model cell motility. We use an upper-convected Maxwell model and demonstrate that even the simplest of two-phase, viscoelastic models displays features relevant to cell motility. We also show care must be exercised in choosing parameters for such models as a poor choice can lead to an ill-posed problem. A stability analysis reveals that the initially stationary, spatially uniform strip of cytoplasm starts to crawl in response to a perturbation which breaks the symmetry of the network volume fraction or network stress. We also demonstrate numerically that there is a steady travelling-wave solution in which the crawling velocity has a bell-shaped dependence on adhesion strength, in agreement with biological observation.

  4. Screening of human tumor antigens for CD4 T cell epitopes by combination of HLA-transgenic mice, recombinant adenovirus and antigen peptide libraries.

    Directory of Open Access Journals (Sweden)

    Wolfram Osen

    Full Text Available BACKGROUND: As tumor antigen-specific CD4+ T cells can mediate strong therapeutic anti-tumor responses in melanoma patients we set out to establish a comprehensive screening strategy for the identification of tumor-specific CD4+ T cell epitopes suitable for detection, isolation and expansion of tumor-reactive T cells from patients. METHODS AND FINDINGS: To scan the human melanoma differentiation antigens TRP-1 and TRP-2 for HLA-DRB1*0301-restricted CD4+ T cell epitopes we applied the following methodology: Splenocytes of HLA-DRB1*0301-transgenic mice immunized with recombinant adenovirus encoding TRP-1 (Ad5.TRP-1 or TRP-2 (Ad5.TRP-2 were tested for their T cell reactivity against combinatorial TRP-1- and TRP-2-specific peptide libraries. CD4+ T cell epitopes thus identified were validated in the human system by stimulation of peripheral blood mononuclear cells (PBMC from healthy donors and melanoma patients. Using this strategy we observed that recombinant Ad5 induced strong CD4+ T cell responses against the heterologous tumor antigens. In Ad5.TRP-2-immunized mice CD4+ T cell reactivity was detected against the known HLA-DRB1*0301-restricted TRP-2(60-74 epitope and against the new epitope TRP-2(149-163. Importantly, human T cells specifically recognizing target cells loaded with the TRP-2(149-163-containing library peptide or infected with Ad5.TRP-2 were obtained from healthy individuals, and short term in vitro stimulation of PBMC revealed the presence of epitope-reactive CD4+ T cells in melanoma patients. Similarly, immunization of mice with Ad5.TRP-1 induced CD4+ T cell responses against TRP-1-derived peptides that turned out to be recognized also by human T cells, resulting in the identification of TRP-1(284-298 as a new HLA-DRB1*0301-restricted CD4+ T cell epitope. CONCLUSIONS: Our screening approach identified new HLA-DRB1*0301-restricted CD4+ T cell epitopes derived from melanoma antigens. This strategy is generally applicable to target

  5. A methodology for linking 2D overland flow models with the sewer network model SWMM 5.1 based on dynamic link libraries.

    Science.gov (United States)

    Leandro, Jorge; Martins, Ricardo

    2016-01-01

    Pluvial flooding in urban areas is characterized by a gradually varying inundation process caused by surcharge of the sewer manholes. Therefore urban flood models need to simulate the interaction between the sewer network and the overland flow in order to accurately predict the flood inundation extents. In this work we present a methodology for linking 2D overland flow models with the storm sewer model SWMM 5. SWMM 5 is a well-known free open-source code originally developed in 1971. The latest major release saw its structure re-written in C ++ allowing it to be compiled as a command line executable or through a series of calls made to function inside a dynamic link library (DLL). The methodology developed herein is written inside the same DLL in C + +, and is able to simulate the bi-directional interaction between both models during simulation. Validation is done in a real case study with an existing urban flood coupled model. The novelty herein is that the new methodology can be added to SWMM without the need for editing SWMM's original code. Furthermore, it is directly applicable to other coupled overland flow models aiming to use SWMM 5 as the sewer network model.

  6. Screening of an FDA-approved compound library identifies four small-molecule inhibitors of Middle East respiratory syndrome coronavirus replication in cell culture.

    Science.gov (United States)

    de Wilde, Adriaan H; Jochmans, Dirk; Posthuma, Clara C; Zevenhoven-Dobbe, Jessika C; van Nieuwkoop, Stefan; Bestebroer, Theo M; van den Hoogen, Bernadette G; Neyts, Johan; Snijder, Eric J

    2014-08-01

    Coronaviruses can cause respiratory and enteric disease in a wide variety of human and animal hosts. The 2003 outbreak of severe acute respiratory syndrome (SARS) first demonstrated the potentially lethal consequences of zoonotic coronavirus infections in humans. In 2012, a similar previously unknown coronavirus emerged, Middle East respiratory syndrome coronavirus (MERS-CoV), thus far causing over 650 laboratory-confirmed infections, with an unexplained steep rise in the number of cases being recorded over recent months. The human MERS fatality rate of ∼ 30% is alarmingly high, even though many deaths were associated with underlying medical conditions. Registered therapeutics for the treatment of coronavirus infections are not available. Moreover, the pace of drug development and registration for human use is generally incompatible with strategies to combat emerging infectious diseases. Therefore, we have screened a library of 348 FDA-approved drugs for anti-MERS-CoV activity in cell culture. If such compounds proved sufficiently potent, their efficacy might be directly assessed in MERS patients. We identified four compounds (chloroquine, chlorpromazine, loperamide, and lopinavir) inhibiting MERS-CoV replication in the low-micromolar range (50% effective concentrations [EC(50)s], 3 to 8 μM). Moreover, these compounds also inhibit the replication of SARS coronavirus and human coronavirus 229E. Although their protective activity (alone or in combination) remains to be assessed in animal models, our findings may offer a starting point for treatment of patients infected with zoonotic coronaviruses like MERS-CoV. Although they may not necessarily reduce viral replication to very low levels, a moderate viral load reduction may create a window during which to mount a protective immune response.

  7. Generation of a phage-display library of single-domain camelid VH H antibodies directed against Chlamydomonas reinhardtii antigens, and characterization of VH Hs binding cell-surface antigens.

    Science.gov (United States)

    Jiang, Wenzhi; Rosenberg, Julian N; Wauchope, Akelia D; Tremblay, Jacqueline M; Shoemaker, Charles B; Weeks, Donald P; Oyler, George A

    2013-11-01

    Single-domain antibodies (sdAbs) are powerful tools for the detection, quantification, purification and subcellular localization of proteins of interest in biological research. We have generated camelid (Lama pacos) heavy chain-only variable VH domain (VH H) libraries against antigens in total cell lysates from Chlamydomonas reinhardtii. The sdAbs in the sera from immunized animals and VH H antibody domains isolated from the library show specificity to C. reinhardtii and lack of reactivity to antigens from four other algae: Chlorella variabilis, Coccomyxa subellipsoidea, Nannochloropsis oceanica and Thalassiosira pseudonana. Antibodies were produced against a diverse representation of antigens as evidenced by sera ELISA and protein-blot analyses. A phage-display library consisting of the VH H region contained at least 10(6) individual transformants, and thus should represent a wide range of C. reinhardtii antigens. The utility of the phage library was demonstrated by using live C. reinhardtii cells to pan for VH H clones with specific recognition of cell-surface epitopes. The lead candidate VH H clones (designated B11 and H10) bound to C. reinhardtii with EC50 values ≤ 0.5 nm. Treatment of cells with VH H B11 fused to the mCherry or green fluorescent proteins allowed brilliant and specific staining of the C. reinhardtii cell wall and analysis of cell-wall genesis during cell division. Such high-complexity VH H antibody libraries for algae will be valuable tools for algal researchers and biotechnologists.

  8. Digital Libraries from Concept to Practice

    CERN Document Server

    Banciu, D

    2007-01-01

    The paper represents the result of research in the field of digital libraries functionalities in the context of new Grid infrastructure support. It is defined a new vector of knowledge society, informational vector - content vector. It presents a Grid European project which includes Romanian partners, and it defines on this base a digital library model which can be applied for the libraries in Romania.

  9. A Structured Population Model of Cell Differentiation

    CERN Document Server

    Doumic, Marie; Perthame, Benoit; Zubelli, Jorge P

    2010-01-01

    We introduce and analyze several aspects of a new model for cell differentiation. It assumes that differentiation of progenitor cells is a continuous process. From the mathematical point of view, it is based on partial differential equations of transport type. Specifically, it consists of a structured population equation with a nonlinear feedback loop. This models the signaling process due to cytokines, which regulate the differentiation and proliferation process. We compare the continuous model to its discrete counterpart, a multi-compartmental model of a discrete collection of cell subpopulations recently proposed by Marciniak-Czochra et al. in 2009 to investigate the dynamics of the hematopoietic system. We obtain uniform bounds for the solutions, characterize steady state solutions, and analyze their linearized stability. We show how persistence or extinction might occur according to values of parameters that characterize the stem cells self-renewal. We also perform numerical simulations and discuss the q...

  10. Identification of a panel of tumor-associated antigens from breast carcinoma cell lines, solid tumors and testis cDNA libraries displayed on lambda phage

    Directory of Open Access Journals (Sweden)

    Cianfriglia Maurizio

    2004-11-01

    Full Text Available Abstract Background Tumor-associated antigens recognized by humoral effectors of the immune system are a very attractive target for human cancer diagnostics and therapy. Recent advances in molecular techniques have led to molecular definition of immunogenic tumor proteins based on their reactivity with autologous patient sera (SEREX. Methods Several high complexity phage-displayed cDNA libraries from breast carcinomas, human testis and breast carcinoma cell lines MCF-7, MDA-MB-468 were constructed. The cDNAs were expressed in the libraries as fusion to bacteriophage lambda protein D. Lambda-displayed libraries were efficiently screened with sera from patients with breast cancer. Results A panel of 21 clones representing 18 different antigens, including eight proteins of unknown function, was identified. Three of these antigens (T7-1, T11-3 and T11-9 were found to be overexpressed in tumors as compared to normal breast. A serological analysis of the 21 different antigens revealed a strong cancer-related profile for at least five clones (T6-2, T6-7, T7-1, T9-21 and T9-27. Conclusions Preliminary results indicate that patient serum reactivity against five of the antigens is associated with tumor disease. The novel T7-1 antigen, which is overexpressed in breast tumors and recognized specifically by breast cancer patient sera, is potentially useful in cancer diagnosis.

  11. 知识联盟图书馆知识共享模型研究%Research on the Knowledge Sharing Model of Knowkedge Consortia Library

    Institute of Scientific and Technical Information of China (English)

    周艳

    2011-01-01

    通过对当今图书馆的知识共享现状进行分析,讨论研究知识共享的各种影响因素及策略分析,在对原有模型分析研究的基础上提出了新的模型架构,并通过对知识共享模型的研究,探讨提升知识联盟图书馆的意义。%Based on analysis the current status of knowledge sharing of the library,This article discusses the various factors affecting knowledge sharing and policy analysis,proposes new model structure based on the study of the original model.It is to explore the significance of the library to enhance knowledge alliance by the research of knowledge sharing model.

  12. Customer service in libraries best practices

    CERN Document Server

    Harmon, Charles

    2013-01-01

    In this book, nine librarians from across the country describe their libraries' best practices in this key area. Their contributions range from all-encompassing customer service policies and models any library can both adapt and be proud of to micro-approaches that emphasize offering excellent user-focused technology planning, picture book arrangement with patrons in mind, Web 2.0 tools to connect users with the library, establishing good service delivery chains, and making your library fantastic for homeschoolers.

  13. Computational and Modeling Strategies for Cell Motility

    Science.gov (United States)

    Wang, Qi; Yang, Xiaofeng; Adalsteinsson, David; Elston, Timothy C.; Jacobson, Ken; Kapustina, Maryna; Forest, M. Gregory

    A predictive simulation of the dynamics of a living cell remains a fundamental modeling and computational challenge. The challenge does not even make sense unless one specifies the level of detail and the phenomena of interest, whether the focus is on near-equilibrium or strongly nonequilibrium behavior, and on localized, subcellular, or global cell behavior. Therefore, choices have to be made clear at the outset, ranging from distinguishing between prokaryotic and eukaryotic cells, specificity within each of these types, whether the cell is "normal," whether one wants to model mitosis, blebs, migration, division, deformation due to confined flow as with red blood cells, and the level of microscopic detail for any of these processes. The review article by Hoffman and Crocker [48] is both an excellent overview of cell mechanics and an inspiration for our approach. One might be interested, for example, in duplicating the intricate experimental details reported in [43]: "actin polymerization periodically builds a mechanical link, the lamellipodium, connecting myosin motors with the initiation of adhesion sites, suggesting that the major functions driving motility are coordinated by a biomechanical process," or to duplicate experimental evidence of traveling waves in cells recovering from actin depolymerization [42, 35]. Modeling studies of lamellipodial structure, protrusion, and retraction behavior range from early mechanistic models [84] to more recent deterministic [112, 97] and stochastic [51] approaches with significant biochemical and structural detail. Recent microscopic-macroscopic models and algorithms for cell blebbing have been developed by Young and Mitran [116], which update cytoskeletal microstructure via statistical sampling techniques together with fluid variables. Alternatively, whole cell compartment models (without spatial details) of oscillations in spreading cells have been proposed [35, 92, 109] which show positive and negative feedback

  14. Science and Technology Undergraduate Students' Use of the Internet, Cell Phones and Social Networking Sites to Access Library Information

    Science.gov (United States)

    Salisbury, Lutishoor; Laincz, Jozef; Smith, Jeremy J.

    2012-01-01

    Many academic libraries and publishers have developed mobile-optimized versions of their web sites and catalogs. Almost all database vendors and major journal publishers have provided a way to connect to their resources via the Internet and the mobile web. In light of this pervasive use of the Internet, mobile devices and social networking, this…

  15. Library news

    CERN Multimedia

    CERN Library

    2010-01-01

    The CERN Library has been providing electronic access to the "Techniques de l'Ingénieur" database for the past 8 months. As a reminder, this is a multidisciplinary database of over 4000 technical and scientific articles in French, covering a broad range of topics such as mechanical engineering, safety, electronics and the environment. In a few simple steps, you can create your own account, select the types of documents you are interested in and configure your settings so as to receive alerts when articles in your field of activity are published. You can now access this resource from outside CERN using the "remote access to electronic resources" service. Further information is available here. Direct access to the database. Remote access to electronic resources. If you have any questions or comments, don't hesitate to contact us at: library.desk@cern.ch.

  16. Malaria modeling: In vitro stem cells vs in vivo models

    OpenAIRE

    Noulin, Florian

    2016-01-01

    The recent development of stem cell research and the possibility of generating cells that can be stably and permanently modified in their genome open a broad horizon in the world of in vitro modeling. The malaria field is gaining new opportunities from this important breakthrough and novel tools were adapted and opened new frontiers for malaria research. In addition to the new in vitro systems, in recent years there were also significant advances in the development of new animal models that a...

  17. The Study of Analytical Model of Library Electronic Resources Usage-A Case of Medical Electronic Resources

    OpenAIRE

    Chung-Yen Yu; Jiann-Cherng Shieh

    2014-01-01

    With the advents of internet, the importance of electronic resources is growing. Due to the increasing expensiveness of electronic resources, university libraries normally received budgets from parent institutions annually. They necessarily applied effective and systematic methods for decision making in electronic resources purchase or re-subscription. However, there are some difficulties in practices: First of all, libraries are unable to receive user records; second, the COUNTER statistics ...

  18. Analysis of Factor Influencing the Tablet Acceptance for Library Information Services: A Combination of UTAUT and TTF Model

    OpenAIRE

    Sununthar Vongjaturapat; Singha Chaveesuk; Nopporn Chotikakamthorn; Sakesan Tongkhambanchong

    2015-01-01

    Increasingly, powerful mobile technology, like the tablet, empowers learners to seek information in mobile learning scenarios virtually anywhere and anytime. It is important for the academic library to look at how students use their tablets for library information seeking tasks to fully understand the nature of the patron's task and the need for the tablet. This study investigates the function of mobile technology based on the information seeking task, with particular reference to the appropr...

  19. A demonstration of CMOS VLSI circuit prototyping in support of the site facility using the 1.2 micron standard cell library developed by National Security Agency

    Science.gov (United States)

    Smith, Edwyn D.

    1991-01-01

    Two silicon CMOS application specific integrated circuits (ASICs), a data generation chip, and a data checker chip were designed. The conversion of the data generator circuitry into a pair of CMOS ASIC chips using the 1.2 micron standard cell library is documented. The logic design of the data checker is discussed. The functions of the control circuitry is described. An accurate estimate of timing relationships is essential to make sure that the logic design performs correctly under practical conditions. Timing and delay information are examined.

  20. An electrostatic model for biological cell division

    CERN Document Server

    Faraggi, Eshel

    2010-01-01

    Probably the most fundamental processes for biological systems is their ability to create themselves through the use of cell division and cell differentiation. In this work a simple physical model is proposed for biological cell division. The model consists of a positive ionic gradient across the cell membrane, and concentration of charge at the nodes of the spindle and on the chromosomes. A simple calculation, based on Coulomb's Law, shows that under such circumstances a chromosome will tend to break up to its constituent chromatids and that the chromatids will be separated by a distance that is an order of thirty percent of the distance between the spindle nodes. Further repulsion between the nodes will tend to stretch the cell and eventually break the cell membrane between the separated chromatids, leading to cell division. The importance of this work is in continuing the understanding of the electromagnetic basis of cell division and providing it with an analytical model. A central implication of this and...

  1. Open Access, Library Subscriptions and Article Processing Charges: Hybrid journals models and issues

    OpenAIRE

    Vijayakumar, J. K.; Tamarkin, Molly

    2016-01-01

    Hybrid journals contains articles behind a pay-wall to be subscribed, as well as papers made open access when author pays article processing charge (APC). In such cases, an Institution will end up paying twice and Publishers tend to double-dip. Discussions and pilot models are emerging on pricing options, such as “offset pricing,” [where APCs are adjusted or discounted with subscription costs as vouchers or reductions in next year subscriptions, APCs beyond the subscription costs are modestl...

  2. Large animal models for stem cell therapy.

    Science.gov (United States)

    Harding, John; Roberts, R Michael; Mirochnitchenko, Oleg

    2013-03-28

    The field of regenerative medicine is approaching translation to clinical practice, and significant safety concerns and knowledge gaps have become clear as clinical practitioners are considering the potential risks and benefits of cell-based therapy. It is necessary to understand the full spectrum of stem cell actions and preclinical evidence for safety and therapeutic efficacy. The role of animal models for gaining this information has increased substantially. There is an urgent need for novel animal models to expand the range of current studies, most of which have been conducted in rodents. Extant models are providing important information but have limitations for a variety of disease categories and can have different size and physiology relative to humans. These differences can preclude the ability to reproduce the results of animal-based preclinical studies in human trials. Larger animal species, such as rabbits, dogs, pigs, sheep, goats, and non-human primates, are better predictors of responses in humans than are rodents, but in each case it will be necessary to choose the best model for a specific application. There is a wide spectrum of potential stem cell-based products that can be used for regenerative medicine, including embryonic and induced pluripotent stem cells, somatic stem cells, and differentiated cellular progeny. The state of knowledge and availability of these cells from large animals vary among species. In most cases, significant effort is required for establishing and characterizing cell lines, comparing behavior to human analogs, and testing potential applications. Stem cell-based therapies present significant safety challenges, which cannot be addressed by traditional procedures and require the development of new protocols and test systems, for which the rigorous use of larger animal species more closely resembling human behavior will be required. In this article, we discuss the current status and challenges of and several major directions

  3. Cardiac Electromechanical Models: From Cell to Organ

    Directory of Open Access Journals (Sweden)

    Natalia A Trayanova

    2011-08-01

    Full Text Available The heart is a multiphysics and multiscale system that has driven the development of the most sophisticated mathematical models at the frontiers of computation physiology and medicine. This review focuses on electromechanical (EM models of the heart from the molecular level of myofilaments to anatomical models of the organ. Because of the coupling in terms of function and emergent behaviors at each level of biological hierarchy, separation of behaviors at a given scale is difficult. Here, a separation is drawn at the cell level so that the first half addresses subcellular/single cell models and the second half addresses organ models. At the subcelluar level, myofilament models represent actin-myosin interaction and Ca-based activation. Myofilament models and their refinements represent an overview of the development in the field. The discussion of specific models emphasizes the roles of cooperative mechanisms and sarcomere length dependence of contraction force, considered the cellular basis of the Frank-Starling law. A model of electrophysiology and Ca handling can be coupled to a myofilament model to produce an EM cell model, and representative examples are summarized to provide an overview of the progression of field. The second half of the review covers organ-level models that require solution of the electrical component as a reaction-diffusion system and the mechanical component, in which active tension generated by the myocytes produces deformation of the organ as described by the equations of continuum mechanics. As outlined in the review, different organ-level models have chosen to use different ionic and myofilament models depending on the specific application; this choice has been largely dictated by compromises between model complexity and computational tractability. The review also addresses application areas of EM models such as cardiac resynchronization therapy and the role of mechano-electric coupling in arrhythmias and

  4. Study of Photovoltaic Cells Engineering Mathematical Model

    Science.gov (United States)

    Zhou, Jun; Yu, Zhengping; Lu, Zhengyi; Li, Chenhui; Zhang, Ruilan

    2016-11-01

    The characteristic curve of photovoltaic cells is the theoretical basis of PV Power, which simplifies the existing mathematical model, eventually, obtains a mathematical model used in engineering. The characteristic curve of photovoltaic cells contains both exponential and logarithmic calculation. The exponential and logarithmic spread out through Taylor series, which includes only four arithmetic and use single chip microcontroller as the control center. The result shows that: the use of single chip microcontroller for calculating exponential and logarithmic functions, simplifies mathematical model of PV curve, also can meet the specific conditions’ requirement for engineering applications.

  5. Engineered Models of Confined Cell Migration

    Science.gov (United States)

    Paul, Colin D.; Hung, Wei-Chien; Wirtz, Denis; Konstantopoulos, Konstantinos

    2017-01-01

    Cells in the body are physically confined by neighboring cells, tissues, and the extracellular matrix. Although physical confinement modulates intracellular signaling and the underlying mechanisms of cell migration, it is difficult to study in vivo. Furthermore, traditional two-dimensional cell migration assays do not recapitulate the complex topographies found in the body. Therefore, a number of experimental in vitro models that confine and impose forces on cells in well-defined microenvironments have been engineered. We describe the design and use of microfluidic microchannel devices, grooved substrates, micropatterned lines, vertical confinement devices, patterned hydrogels, and micropipette aspiration assays for studying cell responses to confinement. Use of these devices has enabled the delineation of changes in cytoskeletal reorganization, cell–substrate adhesions, intracellular signaling, nuclear shape, and gene expression that result from physical confinement. These assays and the physiologically relevant signaling pathways that have been elucidated are beginning to have a translational and clinical impact. PMID:27420571

  6. A Study of Organization Structure Model in Library Strategic Planning%图书馆战略规划组织结构模型的构建

    Institute of Scientific and Technical Information of China (English)

    贾东琴; 肖雪; 柯平; 陈雅茜

    2011-01-01

    战略规划组织模型对于图书馆战略规划的制定和实施具有重要的意义。本文通过引入相关管理理论,考察国外图书馆战略规划实践,分析规划文本和利用实证研究结论进行了模型构建。战略规划组织模型主要由专职机构设置、组织结构、人员组成及职能四方面构成。%It is of great significance to develop strategic planning management model for the development and implement of library strategic planning.The model can be constructed by introducing relevant theory,observing the practice of library strategic planning abr

  7. Libraries for users services in academic libraries

    CERN Document Server

    Alvite, Luisa

    2010-01-01

    This book reviews the quality and evolution of academic library services. It revises service trends offered by academic libraries and the challenge of enhancing traditional ones such as: catalogues, repositories and digital collections, learning resources centres, virtual reference services, information literacy and 2.0 tools.studies the role of the university library in the new educational environment of higher educationrethinks libraries in academic contextredefines roles for academic libraries

  8. Dormitory libraries: libraries in dormitories

    Directory of Open Access Journals (Sweden)

    Peter Pavletič

    2004-01-01

    Full Text Available Dormitory libries are not justly treated in Slovenia. They have a double purpose: to develop student literacy, especially reading, critical and creative competence and, moreover, to provide students with opportunities for learning and active spending of free-time. This is made possible by means of a good collection of expertly arranged library material, which is regulary updated and presented to its users, both students and tutors alike. A questionnaire has helped us to find out that libraries in secondary school dormitories carry out their work rather successfully, especially from the viewpoint of poor facilities. The major problems are, nevertheless, the appropriate qualifications of those who fill the posts of librarian and low financial resources. Therefore, such activities should be thoroughly analysed and reconsidered in terms of possible effective solutions, if we want to at least maintain them, let alone develop them.

  9. SU-E-J-93: Development of Pre-Contoured Human Model Library in DICOM-RT Format for the Epidemiological Study of the Radiotherapy Patients

    Energy Technology Data Exchange (ETDEWEB)

    Pyakuryal, A; Lee, C [National Cancer Institute, Rockville, MD (United States); Lee, C [University of Michigan, Ann Arbor, MI (United States); Pelletier, C [East Carolina University, Greenville, NC (United States); Jung, J [East Carolina Univ, Greenville, NC (United States)

    2015-06-15

    Purpose: Prior to 3D conformal radiation therapy planning, patient anatomy information was mostly limited to 2D beams-eye-view from the conventional simulator. To analyze the outcomes of such treatments for radiation late effects, 3D computational human models are often used in commercial treatment planning systems (TPSs). However, several underlying difficulties such as time-consuming manual delineation procedures of a large number of structures in the model have always limited its applications. Primary objective of this work was to develop a human model library for the epidemiological study by converting 3D-surface model organs to DICOM-RT format (DICOM-RT structure) using an in-house built software. We converted the ICRP reference human models to DICOM-RT models, which can be readily adopted for various dose calculations. Methods: MATLAB based code were utilized to convert the contour drawings extracted in text-format from the 3D graphic-tool, Rhinoceros into DICOM-RT structure format for 50 different organs of each model using a 16GB dual-core processor. The conversion periods were measured for each DICOM-RT models, and the reconstructed structure volumes were validated against the original 3D-surface models in the TPS. Ten reference hybrid whole-body models (8-pediatric and 2-adults) were automatically processed to create DICOM-RT computational human model library. Results: Mean contour conversion period was found to be 580 (N=2) and 394.5 (N=8) seconds for 50 organs in the adult and pediatric models respectively. A good agreement for large organs (NRMSD <1.0%) and small organs (NRMSD <7.7%) was also observed between the original volumes and corresponding DICOM-RT structure volumes of the organs. Conclusion: The ICRP reference human models were converted into DICOM-RT format to support the epidemiological study using a large cohort of conventional radiotherapy patients. Due to its DICOM-compatibility, the library may be implemented to many other different

  10. Enterprise Reference Library

    Science.gov (United States)

    Bickham, Grandin; Saile, Lynn; Havelka, Jacque; Fitts, Mary

    2011-01-01

    Introduction: Johnson Space Center (JSC) offers two extensive libraries that contain journals, research literature and electronic resources. Searching capabilities are available to those individuals residing onsite or through a librarian s search. Many individuals have rich collections of references, but no mechanisms to share reference libraries across researchers, projects, or directorates exist. Likewise, information regarding which references are provided to which individuals is not available, resulting in duplicate requests, redundant labor costs and associated copying fees. In addition, this tends to limit collaboration between colleagues and promotes the establishment of individual, unshared silos of information The Integrated Medical Model (IMM) team has utilized a centralized reference management tool during the development, test, and operational phases of this project. The Enterprise Reference Library project expands the capabilities developed for IMM to address the above issues and enhance collaboration across JSC. Method: After significant market analysis for a multi-user reference management tool, no available commercial tool was found to meet this need, so a software program was built around a commercial tool, Reference Manager 12 by The Thomson Corporation. A use case approach guided the requirements development phase. The premise of the design is that individuals use their own reference management software and export to SharePoint when their library is incorporated into the Enterprise Reference Library. This results in a searchable user-specific library application. An accompanying share folder will warehouse the electronic full-text articles, which allows the global user community to access full -text articles. Discussion: An enterprise reference library solution can provide a multidisciplinary collection of full text articles. This approach improves efficiency in obtaining and storing reference material while greatly reducing labor, purchasing and

  11. Modeling Natural Killer Cell Targeted Immunotherapies

    Science.gov (United States)

    Lopez-Lastra, Silvia; Di Santo, James P.

    2017-01-01

    Animal models have extensively contributed to our understanding of human immunobiology and to uncover the underlying pathological mechanisms occurring in the development of diseases. However, mouse models do not reproduce the genetic and molecular complexity inherent in human disease conditions. Human immune system (HIS) mouse models that are susceptible to human pathogens and can recapitulate human hematopoiesis and tumor immunobiology provide one means to bridge the interspecies gap. Natural killer cells are the founding member of the innate lymphoid cell family. They exert a rapid and strong immune response against tumor and pathogen-infected cells. Their antitumor features have long been exploited for therapeutic purposes in the context of cancer. In this review, we detail the development of highly immunodeficient mouse strains and the models currently used in cancer research. We summarize the latest improvements in adoptive natural killer (NK) cell therapies and the development of novel NK cell sources. Finally, we discuss the advantages of HIS mice to study the interactions between human NK cells and human cancers and to develop new therapeutic strategies.

  12. Radiobiological modeling with MarCell software

    Energy Technology Data Exchange (ETDEWEB)

    Hasan, J.S.; Jones, T.D. [Oak Ridge National Lab., TN (United States). Health Sciences Research Div.

    1999-01-01

    A nonlinear system of differential equations that models the bone marrow cellular kinetics associated with radiation injury, molecular repair, and compensatory cell proliferation has been extensively documented. Recently, that model has been implemented as MarCell, a user-friendly MS-DOS computer program that allows users with little knowledge of the original model to evaluate complex radiation exposure scenarios. The software allows modeling with the following radiations: tritium beta, 100 kVp X, 250 kVp X, 22 MV X, {sup 60}Co, {sup 137}Cs, 2 MeV electrons, triga neutrons, D-T neutrons, and 3 blends of mixed-field fission radiations. The possible cell lineages are stem, stroma, and leukemia/lymphoma, and the available species include mouse, rat, dog, sheep, swine, burro, and man. An attractive mathematical feature is that any protracted protocol can be expressed as an equivalent prompt dose for either the source used or for a reference, such as 250 kVp X rays or {sup 60}Co. Output from MarCell includes: risk of 30-day mortality; risk of cancer and leukemia based either on cytopenia or compensatory cell proliferation; cell survival plots as a function of time or dose; and 4-week recovery kinetics following treatment. In this article, the program`s applicability and ease of use are demonstrated by evaluating a medical total body irradiation protocol and a nuclear fallout scenario.

  13. Towards a suite of test cases and a pycomodo library to assess and improve numerical methods in ocean models

    Science.gov (United States)

    Garnier, Valérie; Honnorat, Marc; Benshila, Rachid; Boutet, Martial; Cambon, Gildas; Chanut, Jérome; Couvelard, Xavier; Debreu, Laurent; Ducousso, Nicolas; Duhaut, Thomas; Dumas, Franck; Flavoni, Simona; Gouillon, Flavien; Lathuilière, Cyril; Le Boyer, Arnaud; Le Sommer, Julien; Lyard, Florent; Marsaleix, Patrick; Marchesiello, Patrick; Soufflet, Yves

    2016-04-01

    bed to continue research in numerical approaches as well as an efficient tool to maintain any oceanic code and assure the users a stamped model in a certain range of hydrodynamical regimes. Thanks to a common netCDF format, this suite is completed with a python library that encompasses all the tools and metrics used to assess the efficiency of the numerical methods. References - Couvelard X., F. Dumas, V. Garnier, A.L. Ponte, C. Talandier, A.M. Treguier (2015). Mixed layer formation and restratification in presence of mesoscale and submesoscale turbulence. Ocean Modelling, Vol 96-2, p 243-253. doi:10.1016/j.ocemod.2015.10.004. - Soufflet Y., P. Marchesiello, F. Lemarié, J. Jouanno, X. Capet, L. Debreu , R. Benshila (2016). On effective resolution in ocean models. Ocean Modelling, in press. doi:10.1016/j.ocemod.2015.12.004

  14. Chemical Library Screening and Structure-Function Relationship Studies Identify Bisacodyl as a Potent and Selective Cytotoxic Agent Towards Quiescent Human Glioblastoma Tumor Stem-Like Cells.

    Directory of Open Access Journals (Sweden)

    Maria Zeniou

    Full Text Available Cancer stem-like cells reside in hypoxic and slightly acidic tumor niches. Such microenvironments favor more aggressive undifferentiated phenotypes and a slow growing "quiescent state" which preserves them from chemotherapeutic agents that essentially target proliferating cells. Our objective was to identify compounds active on glioblastoma stem-like cells, including under conditions that mimick those found in vivo within this most severe and incurable form of brain malignancy. We screened the Prestwick Library to identify cytotoxic compounds towards glioblastoma stem-like cells, either in a proliferating state or in more slow-growing "quiescent" phenotype resulting from non-renewal of the culture medium in vitro. Compound effects were assessed by ATP-level determination using a cell-based assay. Twenty active molecules belonging to different pharmacological classes have thus been identified. Among those, the stimulant laxative drug bisacodyl was the sole to inhibit in a potent and specific manner the survival of quiescent glioblastoma stem-like cells. Subsequent structure-function relationship studies led to identification of 4,4'-dihydroxydiphenyl-2-pyridyl-methane (DDPM, the deacetylated form of bisacodyl, as the pharmacophore. To our knowledge, bisacodyl is currently the only known compound targeting glioblastoma cancer stem-like cells in their quiescent, more resistant state. Due to its known non-toxicity in humans, bisacodyl appears as a new potential anti-tumor agent that may, in association with classical chemotherapeutic compounds, participate in tumor eradication.

  15. Chemical Library Screening and Structure-Function Relationship Studies Identify Bisacodyl as a Potent and Selective Cytotoxic Agent Towards Quiescent Human Glioblastoma Tumor Stem-Like Cells.

    Science.gov (United States)

    Zeniou, Maria; Fève, Marie; Mameri, Samir; Dong, Jihu; Salomé, Christophe; Chen, Wanyin; El-Habr, Elias A; Bousson, Fanny; Sy, Mohamadou; Obszynski, Julie; Boh, Alexandre; Villa, Pascal; Assad Kahn, Suzana; Didier, Bruno; Bagnard, Dominique; Junier, Marie-Pierre; Chneiweiss, Hervé; Haiech, Jacques; Hibert, Marcel; Kilhoffer, Marie-Claude

    2015-01-01

    Cancer stem-like cells reside in hypoxic and slightly acidic tumor niches. Such microenvironments favor more aggressive undifferentiated phenotypes and a slow growing "quiescent state" which preserves them from chemotherapeutic agents that essentially target proliferating cells. Our objective was to identify compounds active on glioblastoma stem-like cells, including under conditions that mimick those found in vivo within this most severe and incurable form of brain malignancy. We screened the Prestwick Library to identify cytotoxic compounds towards glioblastoma stem-like cells, either in a proliferating state or in more slow-growing "quiescent" phenotype resulting from non-renewal of the culture medium in vitro. Compound effects were assessed by ATP-level determination using a cell-based assay. Twenty active molecules belonging to different pharmacological classes have thus been identified. Among those, the stimulant laxative drug bisacodyl was the sole to inhibit in a potent and specific manner the survival of quiescent glioblastoma stem-like cells. Subsequent structure-function relationship studies led to identification of 4,4'-dihydroxydiphenyl-2-pyridyl-methane (DDPM), the deacetylated form of bisacodyl, as the pharmacophore. To our knowledge, bisacodyl is currently the only known compound targeting glioblastoma cancer stem-like cells in their quiescent, more resistant state. Due to its known non-toxicity in humans, bisacodyl appears as a new potential anti-tumor agent that may, in association with classical chemotherapeutic compounds, participate in tumor eradication.

  16. Bonded-cell model for particle fracture.

    Science.gov (United States)

    Nguyen, Duc-Hanh; Azéma, Emilien; Sornay, Philippe; Radjai, Farhang

    2015-02-01

    Particle degradation and fracture play an important role in natural granular flows and in many applications of granular materials. We analyze the fracture properties of two-dimensional disklike particles modeled as aggregates of rigid cells bonded along their sides by a cohesive Mohr-Coulomb law and simulated by the contact dynamics method. We show that the compressive strength scales with tensile strength between cells but depends also on the friction coefficient and a parameter describing cell shape distribution. The statistical scatter of compressive strength is well described by the Weibull distribution function with a shape parameter varying from 6 to 10 depending on cell shape distribution. We show that this distribution may be understood in terms of percolating critical intercellular contacts. We propose a random-walk model of critical contacts that leads to particle size dependence of the compressive strength in good agreement with our simulation data.

  17. Combined whole-cell high-throughput functional screening for identification of new nicotinamidases/pyrazinamidases in metagenomic/polygenomic libraries

    Directory of Open Access Journals (Sweden)

    Rubén Zapata-Pérez

    2016-11-01

    Full Text Available Nicotinamidases catalyze the hydrolysis of the amide bond in nicotinamide to produce ammonia and nicotinic acid. These enzymes are an essential component of the NAD+ salvage pathway and are implicated in the viability of several pathogenic organisms. Its absence in humans makes them a promising drug target. In addition, although they are key analytical biocatalysts for screening modulators in relevant biomedical enzymes, such as sirtuins and poly-ADP-ribosyltransferases, no commercial sources are available. Surprisingly, the finding of an affordable source of nicotinamidase from metagenomic libraries is hindered by the absence of a suitable and fast screening method. In this manuscript, we describe the development of two new whole-cell methods using the chemical property of one of the products formed in the enzymatic reaction (pyrazinoic or nicotinic acid to form colored complexes with stable iron salts, such as ammonium ferrous sulfate or sodium nitroprusside. After optimization of the assay conditions, a fosmid polygenomic expression library obtained from deep-sea mesophilic bacteria was screened, discovering several positive clones with the ammonium ferrous sulfate method. Their quantitative rescreening with the sodium nitroprusside method allowed the finding of the first nicotinamidase with balanced catalytic efficiency towards nicotinamide (nicotinamidase activity and pyrazinamide (pyrazinamidase activity. Its biochemical characterization has also made possible the development of the first high-throughput whole-cell method for prescreening of new nicotinamidase inhibitors by the naked eye, saving time and costs in the design of future antimicrobial and antiparasitic agents.

  18. Construction of cDNA representational difference analysis based on two cDNA libraries and identification of garlic inducible expression genes in human gastric cancer cells

    Institute of Scientific and Technical Information of China (English)

    Yong Li; Lin Yang; Jian-Tao Cui; Wen-Mei Li; Rui-Fang Guo; You-Yong Lu

    2002-01-01

    AIM: To elucidate molecular mechanism of chemopreventiveefficacies of garlic against human gastric cancer (HGC):METHODS: HGC cell line BGC823 was treated with Allitridi (akind of garlic extract) and Allitridi-treated and parentalBGC823 cDNA librarles were constructed respectively byusing λZAP Ⅱ vector. cDNA Representatinal DifferenceAnalysis (cDNA RDA) was perfonmed using BamH Ⅰ cutting-site and abundant ~DNA messages provided by the Iibrarles.Northern blot analysls was applied to identifythe obtaineddifference prnducts.RESULTS: Two specific cDNA fragments were obtained andcharacterized to be derived from homo sapiens folatereceptorα (FRα) gene and calcyclin gene respectively.Northern blot results showed a 4-fold increase in FRα geneexpression level and 9-fold increase in calcyclin mRNA levelin BGC823 cells after Allilridi treatment for 72 h.CONCLUSION: The method of cDNA RDA based on cDNAlibraries combines the high specificity of cDNA RDA withabundant cDNA messages in cDNA library; this expands theapplication of cDNA library and increases the specificity ofcDNA RDA. Up-regulstion of FRα gene and calcyclin geneexpressions induced by Allitridi provide valuable molecularevidence for theefficacy of garlic in treating HGC as well asother diseases.

  19. Implementing PDA technology in a medical library: experiences in a hospital library and an academic medical center library.

    Science.gov (United States)

    Morgen, Evelyn Breck

    2003-01-01

    Personal digital assistants (PDAs) have grown from being a novelty in the late 1990s to an essential tool for healthcare professionals in the 2000s. This paper describes the experiences of a librarian who implemented PDA technology first in a hospital library, and then at an academic medical center library. It focuses on the role of the library in supporting PDA technology and resources. Included are programmatic issues such as training for library staff and clinicians, and technical issues such as Palm and Windows operating systems. This model could be used in either a hospital or academic health sciences library.

  20. Bonded-cell model for particle fracture

    OpenAIRE

    Nguyen, Duc-Hanh; Azéma, Émilien; Sornay, Philippe; Radjaï, Farhang

    2015-01-01

    International audience; Particle degradation and fracture play an important role in natural granular flows and in many applications of granular materials. We analyze the fracture properties of two-dimensional disklike particles modeled as aggregates of rigid cells bonded along their sides by a cohesive Mohr-Coulomb law and simulated by the contact dynamics method. We show that the compressive strength scales with tensile strength between cells but depends also on the friction coefficient and ...

  1. Computational Modeling of Cell Survival Using VHDL

    Directory of Open Access Journals (Sweden)

    Shruti Jain1,

    2010-01-01

    Full Text Available The model for cell survival has been implemented using VeryHigh Speed Integrated Circuit Hardware DescriptionLanguage (VHDL (Xilinx Tool taking three input signals:Tumor necrosis factor-α (TNF, Epidermal growth factor(EGF and Insulin. Cell survival has been regulated by theinteraction of five proteins viz P13K, TNFR1, EGFR, IRS andIKK in a network. In the absence of any one, in protein networkleads to cell death. For the EGF input signal the proteins likeMEK, ERK, AkT, Rac & JNK have been important forregulation of cell survival. Similarly for TNF and Insulin inputsignal proteins like NFκB, AkT, XIAP, JNK, MAP3K & MK2and MEK, ERK, AkT, Rac, mTOR & JNK respectively havebeen important for regulation of cell survival.

  2. Modeling traction forces in collective cell migration

    Science.gov (United States)

    Zimmermann, Juliane; Basan, Markus; Hayes, Ryan L.; Rappel, Wouter-Jan; Levine, Herbert

    2015-03-01

    Collective cell migration is an important process in embryonic development, wound healing, and cancer metastasis. We have developed a particle-based simulation for collective cell migration that describes flow patterns and finger formation at the tissue edge observed in wound healing experiments. We can apply methods for calculating intercellular stress to our simulation model, and have thereby provided evidence for the validity of a stress reconstitution method from traction forces used in experiments. To accurately capture experimentally measured traction forces and stresses in the tissue, which are mostly tensile, we have to include intracellular acto-myosin contraction into our simulation. We can then reproduce the experimentally observed behavior of cells moving around a circular obstacle, and suggest underlying mechanisms for cell-cell alignment and generation of traction force patterns.

  3. Optical models for silicon solar cells

    Energy Technology Data Exchange (ETDEWEB)

    Marshall, T.; Sopori, B. [National Renewable Energy Lab., Golden, CO (United States)

    1995-08-01

    Light trapping is an important design feature for high-efficiency silicon solar cells. Because light trapping can considerably enhance optical absorption, a thinner substrate can be used which, in turn, can lower the bulk carrier recombination and concommitantly increase open-circuit voltage, and fill factor of the cell. The basic concepts of light trapping are similar to that of excitation of an optical waveguide, where a prism or a grating structure increases the phase velocity of the incoming optical wave such that waves propagated within the waveguide are totally reflected at the interfaces. Unfortunately, these concepts break down because the entire solar cell is covered with such a structure, making it necessary to develop new analytical approaches to deal with incomplete light trapping in solar cells. This paper describes two models that analyze light trapping in thick and thin solar cells.

  4. Marketing the Virtual Library

    Science.gov (United States)

    Fagan, Jody Condit

    2009-01-01

    Far more people are familiar with their local public or college library facility than their library's website and online resources. In fact, according to a recent survey, 96% of Americans said they had visited a library in person, but less than one-third have visited their online library. Since everyone agrees that online library resources are…

  5. National Strategies for Public Library Development

    DEFF Research Database (Denmark)

    Kann-Christensen, Nanna

    2010-01-01

    policies on the local level are discussed. according to the national goals and cultural policies for libraries. This is done in order to point towards a possible relationship between the political means and ends regarding library development. The two models to be discussed are the systems practiced...... by The Danish Agency for Libraries and Media, and The Swedish Arts Council, who both administer development grants to public libraries. The paper identifies both differences and similarities in both the means to (the political agendas) and the objectives of governmental influence in the libraries....

  6. Why Japanese publishers are behind in making journals online? : Library needs assesment may bring up new business models : Interview with Wataru Hoshino, director at The Japan Society of Publishing Studies and director editor in chief at The Bunka Tushin

    Science.gov (United States)

    Morita, Utako

    Why Japanese publishers are behind in making journals online? : Library needs assesment may bring up new business models : Interview with Wataru Hoshino, director at The Japan Society of Publishing Studies and director editor in chief at The Bunka Tushin

  7. SPOC环境下高校图书馆服务模式初探%Probe into the Services Model of University Library in the SPOC Environment

    Institute of Scientific and Technical Information of China (English)

    崔玲玲; 张媛

    2015-01-01

    回顾了MOOC的发展历程,阐述了MOOC存在的弊端,结合SPOC环境下的教育理念,从5方面探索了高校图书馆未来的新型服务模式,以期为图书馆在教育变革中带来新的发展机遇。%This paper reviews the development process of MOOC, expounds the disadvantages of MOOC, points out that the SPOC will make up for the lack of MOOC to usher in a new wave of education reform, and connecting with the educational concepts in the SPOC environment, probes into the new service model of university library in the future, and suggests to carry out the service innovation from five aspects in order to bring a new development opportunity for university library in educational transition.

  8. Research on the Embeded Librarian Service Models of University Libraries%高校图书馆嵌入式馆员服务模式研究

    Institute of Scientific and Technical Information of China (English)

    胡银霞

    2012-01-01

    This paper describes the embedded librarian conception from the start, and analyzes the reason of the rise of embedded librarians. Based on the characteristics of the university library service object ,dissertates the bulding of embedded librarians services models of university libraries, respectively, from embedded faculty, teaching and community in three areas, and pointed out their challenges and coping strategies.%论文从介绍嵌入式馆员的概念着手,分析了嵌入式馆员兴起的缘由。针对高校图书馆服务对象的特点,分别从嵌入院系、教学和社区三个方面,论述了高校嵌入式馆员服务模式的构建,并指出其面临的挑战和应对策略。

  9. What are Libraries For?

    Directory of Open Access Journals (Sweden)

    Hugh McGuire

    2011-04-01

    Full Text Available In the Library with the Lead Pipe welcomes guest author Hugh McGuire, the founder of LibriVox.org, the world’s most prolific publisher of audiobooks (all read by volunteers; Iambik Audio, a commercial audiobook publisher built on a model similar to LibriVox; and PressBooks, a simple digital book-production tool. Hugh served on the Board (2002-2010 of the [...

  10. Modeling cell-in-cell structure into its biological significance

    OpenAIRE

    He, M-f; Wang, S.; Wang, Y; Wang, X-N.

    2013-01-01

    Although cell-in-cell structure was noted 100 years ago, the molecular mechanisms of ‘entering' and the destination of cell-in-cell remain largely unclear. It takes place among the same type of cells (homotypic cell-in-cell) or different types of cells (heterotypic cell-in-cell). Cell-in-cell formation affects both effector cells and their host cells in multiple aspects, while cell-in-cell death is under more intensive investigation. Given that cell-in-cell has an important role in maintainin...

  11. The analysis of VH and VL genes repertoires of Fab library built from peripheral B cells of human rabies virus vaccinated donors.

    Science.gov (United States)

    Houimel, Mehdi

    2014-08-01

    A human combinatorial Fab antibody library was generated from immune repertoire based on peripheral B cells of ten rabies virus vaccinated donors. The analysis of random Fab fragments from the unselected library presented some bias of V gene usage towards IGHV-genes and IGLV-gen families. The screening of the Fab library on rabies virus allowed specific human Fab antibody fragments characterized for their gene encoding sequences, binding and specificities to RV. Genetic analysis of selected Fabs indicated that the IGHV and IGLV differ from the germ-line sequence. At the level of nucleotide sequences, the IGHV and IGLV domains were found to share 74-92% and 90-96% homology with sequences encoded by the corresponding human germ-line genes respectively. IGHV domains are characterized most frequently by IGHV3 genes, and large proportions of the anti-RV heavy chain IGHV domains are obtained following a VDJ recombination process that uses IGHD3, IGHD2, IGHD1 and IGHD6 genes. IGHJ3 and IGHJ4 genes are predominantly used in RV-Fab. The IGLV domains are dominated by IGKV1, IGLV1 and IGLV3 genes. Numerous somatic hypermutations in the RV-specific IGHV are detected, but only limited amino acid replacement in most of the RV-specific IGLV particularly in those encoded by J proximal IGLV or IGKV genes are found. Furthermore, IGHV3-IGKV1, IGHV3-IGVL1, and IGHV3-IGLV3 germ-line family pairings are preferentially enriched after the screening on rabies virus.

  12. Agricultural Libraries and Information.

    Science.gov (United States)

    Russell, Keith W., Ed.; Pisa, Maria G., Ed.

    1990-01-01

    Eleven articles address issues relating to agricultural libraries and information, including background on agricultural libraries and information, trend management, document delivery, reference services, user needs and library services, collection development, technologies for international information management, information sources,…

  13. Italian library associations

    Directory of Open Access Journals (Sweden)

    Ksenija Petaros-Kmetec

    2004-01-01

    Full Text Available In Italy, five library associations of national significance function at present. There are special associations of ecclesiastic libraries, prison libraries, architecture libraries and libraries with artistic material. The role of the general national association, covering all types of libraries including documentation centres, is played by the Italian Library Association. It strive for the development of a contemporary Italian library system comparable to international standards, monitors library legislation, promotes education for librarians and keeps the librarians and the broader public informed about the importance of libraries and librarianship for society. The activity and efforts of the association are reflected through their website offering much information and links to similar sites. ILA presents and realises its activities for both, the librarians and the public users. A great deal of actions promoting libraries and the Library Association might be interesting for Slovenia and perhaps transferred to our environment.

  14. Voronoi cell patterns: Theoretical model and applications

    Science.gov (United States)

    González, Diego Luis; Einstein, T. L.

    2011-11-01

    We use a simple fragmentation model to describe the statistical behavior of the Voronoi cell patterns generated by a homogeneous and isotropic set of points in 1D and in 2D. In particular, we are interested in the distribution of sizes of these Voronoi cells. Our model is completely defined by two probability distributions in 1D and again in 2D, the probability to add a new point inside an existing cell and the probability that this new point is at a particular position relative to the preexisting point inside this cell. In 1D the first distribution depends on a single parameter while the second distribution is defined through a fragmentation kernel; in 2D both distributions depend on a single parameter. The fragmentation kernel and the control parameters are closely related to the physical properties of the specific system under study. We use our model to describe the Voronoi cell patterns of several systems. Specifically, we study the island nucleation with irreversible attachment, the 1D car-parking problem, the formation of second-level administrative divisions, and the pattern formed by the Paris Métro stations.

  15. Modeling sarcomagenesis using multipotent mesenchymal stem cells

    Institute of Scientific and Technical Information of China (English)

    Rene Rodriguez; Ruth Rubio; Pablo Menendez

    2012-01-01

    Because of their unique properties,multipotent mesenchymal stem cells (MSCs) represent one of the most promising adult stem cells being used worldwide in a wide array of clinical applications.Overall,compelling evidence supports the long-term safety of ex vivo expanded human MSCs,which do not seem to transform spontaneously.However,experimental data reveal a link between MSCs and cancer,and MSCs have been reported to inhibit or promote tumor growth depending on yet undefined conditions.Interestingly,solid evidence based on transgenic mice and genetic intervention of MSCs has placed these cells as the most likely cell of origin for certain sarcomas.This research area is being increasingly explored to develop accurate MSC-based models of sarcomagenesis,which will be undoubtedly valuable in providing a better understanding about the etiology and pathogenesis of mesenchymal cancer,eventually leading to the development of more specific therapies directed against the sarcoma-initiating cell.Unfortunately,still little is known about the mechanisms underlying MSC transformation and further studies are required to develop bona fide sarcoma models based on human MSCs.Here,we comprehensively review the existing MSC-based models of sarcoma and discuss the most common mechanisms leading to tumoral transformation of MSCs and sarcomagenesis.

  16. Modeling cell dynamics under mobile phone radiation.

    Science.gov (United States)

    Minelli, Tullio Antonio; Balduzzo, Maurizio; Milone, Francesco Ferro; Nofrate, Valentina

    2007-04-01

    Perturbations by pulse-modulated microwave radiation from GSM mobile phones on neuron cell membrane gating and calcium oscillations have been suggested as a possible mechanism underlying activation of brain states and electroencephalographic epiphenomena. As the employ of UMTS phones seems to reveal other symptoms, a unified phenomenological framework is needed. In order to explain possible effects of mobile phone radiation on cell oscillations, GSM and UMTS low-frequency envelopes have been detected, recorded and used as input in cell models. Dynamical systems endowed with contiguous regular and chaotic regimes suitable to produce stochastic resonance can both account for the perturbation of the neuro-electrical activity and even for the low intensity of the signal perceived by high sensitive subjects. Neuron models of this kind can be employed as a reductionist hint for the mentioned phenomenology. The Hindmarsh-Rose model exhibits frequency enhancement and regularization phenomena induced by weak GSM and UMTS. More realistic simulations of cell membrane gating and calcium oscillations have been performed with the help of an adaptation of the Chay-Keizer dynamical system. This scheme can explain the suspected subjective sensitivity to mobile phone signals under the thermal threshold, in terms of cell calcium regularity mechanisms. Concerning the two kinds of emission, the stronger occupation of the ELF band of last generation UMTS phones is compensated by lower power emitted.

  17. Living Library:The New Reader Service Model of Children’s Library%Living Library:少儿图书馆读者服务新模式

    Institute of Scientific and Technical Information of China (English)

    王祎

    2012-01-01

    Living Library,a new concept of library service,has begun to emerge at home and abroad library circles.This paper analyses the feasibility of children’s library to offer the service of Living Library and elaborates the measures of Living Library service provided by children’s library,in order to make more children’s readers come into library,feel the joy of reading and to broaden the development space of children’s library.%作为一种新型图书馆服务理念,Living Library服务逐渐在国内外图书馆界兴起。分析少儿图书馆开展Living Library服务的可行性,详细阐述少儿图书馆开展Living Library服务的措施,以吸引更多的少儿读者走进图书馆,感受阅读的快乐,拓宽少儿图书馆的发展空间。

  18. Enlightenment of the Organization Model and Core Concept of Living Library for the Library Innovation%Living Library组织模式与核心理念对图书馆创新的启示

    Institute of Scientific and Technical Information of China (English)

    柯丹倩; 吴跃伟; 董克

    2012-01-01

    Living Library是在图书馆的组织下,由特定用户担任Living Book并与其他用户交流从而分享知识和智慧的服务理念与服务方式。Living Library的核心理念是让用户服务用户。Living Library活动的实现需要经历宣传Living Library、招募和组织Living Book、提供Living Book借阅、评估Living Library 4个步骤。LivingLibrary经过10多年的发展,取得了良好的成效,为图书馆服务理念创新带来了启示。%Living library is a kind of service concept and mode organized by libraries,in which special users could exchang with other users as living books,in order to share knowledge and wisdom.The core concept of living library is allowing users to serve for users.There are 4 steps to implement living library services: publicizing living library,recruiting and organizing living books,providing living books,evaluating living library.Living library has achieved good effects through more than ten-year development,and brings inspirations for service concept innovation in libraries.

  19. OCLC Worldcat云计算数字图书馆模型%Model of OCLC Worldcat Cloud Computing Digital Library

    Institute of Scientific and Technical Information of China (English)

    温钊健

    2012-01-01

    The paper introduces the design idea of OCLC Worldcat cloud computing digital library, analyzes the method which OCLC integrates library resource and the daily service process of digital library. The paper also analyses the service level structure, database structure and inner management structure of Worldcat dlgital library, investigates the cloud computing information security system of Worldcat and Worldcat' s effect on improving sharing and availability of digital information resource.%介绍OCLC建立的Worldcat云计算数字图书馆的设计思想及OCLC应用云计算技术整合图书馆资源和数字图书馆日常服务流程的方法,分析在云计算环境下Worldcat数字图书馆的服务层级结构、数据库结构与内部管理结构,考察OCLC建设云计算数字图书馆的成效与OCLC的云环境信息安全保障方案。

  20. The Mobile Library and Staff Preparedness: Exploring Staff Competencies Using the Unified Theory of Acceptance and Use of Technology Model

    Science.gov (United States)

    Saravani, Sarah-Jane; Haddow, Gaby

    2011-01-01

    This paper presents preliminary findings of a study investigating the current state of preparedness of staff at institutes of technology and TAFE libraries across Australia and New Zealand in relation to delivering services through mobile technologies. In particular, the skills, knowledge, and competencies of staff in relation to mobile…

  1. Biophysical models of transcription in cells

    Science.gov (United States)

    Choubey, Sandeep

    Cells constantly face environmental challenges and deal with them by changing their gene expression patterns. They make decisions regarding which genes to express and which genes not to express based on intra-cellular and environmental cues. These decisions are often made by regulating the process of transcription. While the identities of the different molecules that take part in regulating transcription have been determined for a number of different genes, their dynamics inside the cell are still poorly understood. One key feature of these regulatory dynamics is that the numbers of the bio-molecules involved is typically small, resulting in large temporal fluctuations in transcriptional outputs (mRNA and protein). In this thesis I show that measurements of the cell-to-cell variability of the distribution of transcribing RNA polymerases along a gene provide a previously unexplored method for deciphering the mechanism of its transcription in vivo. First, I propose a simple kinetic model of transcription initiation and elongation from which I calculate transcribing RNA polymerase copy-number fluctuations. I test my theory against published data obtained for yeast genes and propose a novel mechanism of transcription. Rather than transcription being initiated through a single rate-limiting step, as was previously proposed, my single-cell analysis reveals the presence of at least two rate limiting steps. Second, I compute the distribution of inter-polymerase distance distribution along a gene and propose a method for analyzing inter-polymerase distance distributions acquired in experiments. By applying this method to images of polymerases transcribing ribosomal genes in E.coli I show that one model of regulation of these genes is consistent with inter-polymerase distance data while a number of other models are not. The analytical framework described in this thesis can be used to extract quantitative information about the dynamics of transcription from single-cell

  2. The New Model of Information Literacy Education in University Library%高校图书馆信息素质教育新模式研究

    Institute of Scientific and Technical Information of China (English)

    王运显

    2012-01-01

    University library is one of the main places for information literary education.With brief introduction of the content for university students' information literacy,the article analyzes the theoretical basis,the policy basis and the practices of information literacy education in university library.It also analyzes the status and problems of information literacy education model.And finally it discusses the new model of information literary education in university library,that is,"information hierarchy of needs" model,the "information man" model and the "information university" model.%高校图书馆是对大学生进行信息素质教育的基地之一。论文首先概述了大学生信息素质的内涵;其次从理论依据、政策依据和实践体现三个方面对高校图书馆开展大学生信息素质教育进行了阐释,并对高校图书馆信息素质教育模式的现状和存在的问题进行了分析;最后,对高校图书馆信息教育的新模式,即"信息需求层次"模式、"信息人"模式和"信息大学"模式进行了阐述。

  3. What cycles the cell? -Robust autonomous cell cycle models.

    Science.gov (United States)

    Lavi, Orit; Louzoun, Yoram

    2009-12-01

    The cell cycle is one of the best studied cellular mechanisms at the experimental and theoretical levels. Although most of the important biochemical components and reactions of the cell cycle are probably known, the precise way the cell cycle dynamics are driven is still under debate. This phenomenon is not atypical to many other biological systems where the knowledge of the molecular building blocks and the interactions between them does not lead to a coherent picture of the appropriate dynamics. We here propose a methodology to develop plausible models for the driving mechanisms of embryonic and cancerous cell cycles. We first define a key property of the system (a cyclic behaviour in the case of the embryonic cell cycle) and set mathematical constraints on the types of two variable simplified systems robustly reproducing such a cyclic behaviour. We then expand these robust systems to three variables and reiterate the procedure. At each step, we further limit the type of expanded systems to fit the known microbiology until a detailed description of the system is obtained. This methodology produces mathematical descriptions of the required biological systems that are more robust to changes in the precise function and rate constants. This methodology can be extended to practically any type of subcellular mechanism.

  4. Model for decision making about the curricular contents of Knowledge Organization in academic programs of Library Science, Documentation or Information Science

    Directory of Open Access Journals (Sweden)

    Ana María Martínez Tamayo

    2014-04-01

    Full Text Available A model is introduced for decision making on curricular contents of Knowledge Organization for academic programs of Library Science, Documentation and Information Science, orientated to the Mercosur region. The design of the model has taken into account the core contents recommended by the Mercosur meetings of directors and teachers from library schools, the so called ISKO trend, and the contributions of several authors related to both sources. The model has three primary categories: foundations, applications and ethics of Knowledge Organization. The foundations are considered from a multidimensional approach. The applications are divided into three secondary categories: a construction of knowledge organization systems, b content description, and c quality management of Knowledge Organization. The ethics is also divided into three secondary categories: ethical commitment, ethical values and ethical problems. The model should be understood as an empty mold that needs to be filled with the contents determined by each academic program or curricular space, and it is expected that facilitates the assessment, updating and comparison of those contents. The limitation of the model is that it is based on the Mercosur recommendations and ISKO trends, which are not accepted by all the specialists.

  5. Non linear behaviour of cell tensegrity models

    Science.gov (United States)

    Alippi, A.; Bettucci, A.; Biagioni, A.; Conclusio, D.; D'Orazio, A.; Germano, M.; Passeri, D.

    2012-05-01

    Tensegrity models for the cytoskeleton structure of living cells is largely used nowadays for interpreting the biochemical response of living tissues to mechanical stresses. Microtubules, microfilaments and filaments are the microscopic cell counterparts of struts (microtubules) and cables (microfilaments and filaments) in the macroscopic world: the formers oppose to compression, the latters to tension, thus yielding an overall structure, light and highly deformable. Specific cell surface receptors, such as integrins, act as the coupling elements that transmit the outside mechanical stress state into the cell body. Reversible finite deformations of tensegrity structures have been widely demonstrated experimentally and in a number of living cell simulations. In the present paper, the bistability behaviour of two general models, the linear bar oscillator and the icosahedron, is studied, as they are both obtained from mathematical simulation, the former, and from larger scale experiments, the latter. The discontinuity in the frequency response of the oscillation amplitude and the lateral bending of the resonance curves are put in evidence, as it grows larger as the driving amplitude increases, respectively.

  6. CellLab-CTS 2015: continuous-time stochastic cellular automaton modeling using Landlab

    Science.gov (United States)

    Tucker, Gregory E.; Hobley, Daniel E. J.; Hutton, Eric; Gasparini, Nicole M.; Istanbulluoglu, Erkan; Adams, Jordan M.; Siddartha Nudurupati, Sai

    2016-02-01

    CellLab-CTS 2015 is a Python-language software library for creating two-dimensional, continuous-time stochastic (CTS) cellular automaton models. The model domain consists of a set of grid nodes, with each node assigned an integer state code that represents its condition or composition. Adjacent pairs of nodes may undergo transitions to different states, according to a user-defined average transition rate. A model is created by writing a Python code that defines the possible states, the transitions, and the rates of those transitions. The code instantiates, initializes, and runs one of four object classes that represent different types of CTS models. CellLab-CTS provides the option of using either square or hexagonal grid cells. The software provides the ability to treat particular grid-node states as moving particles, and to track their position over time. Grid nodes may also be assigned user-defined properties, which the user can update after each transition through the use of a callback function. As a component of the Landlab modeling framework, CellLab-CTS models take advantage of a suite of Landlab's tools and capabilities, such as support for standardized input and output.

  7. Nano composite membrane-electrode assembly formation for fuel cell-modeling aspects

    Science.gov (United States)

    Vaivars, G.; Linkov, V.

    2007-12-01

    Long term stability is an essential requirement for fuel cell applications in automobile and stationary energy systems. In these systems the agglomeration of the catalyst nanoparticles is a well-known phenomenon which cannot be easily overcome or compensated for by re-designing the system. A direct result of this occurrence is the irreversible decrease of the electrochemical performance. Irregularities in electric field distribution are one root cause for migration and subsequent agglomeration of the catalyst nanoparticle. In this work, the impact of the electrode mechanical deformation on electric field distribution was studied using a computer modeling approach. Model of a Proton Exchange Membrane (PEM) fuel cell with interdigitated flow field from Comsol Chemical Engineering/Electrochemical Engineering Module library was used for simulations. It was established that by minimizing the backing layer deformation it is possible to achieve some improvement in current distribution.

  8. A dynamic model of tomato fruit growth integrating cell division, cell growth and endoreduplication

    NARCIS (Netherlands)

    Fanwoua, J.; Visser, de P.H.B.; Heuvelink, E.; Yin, X.; Struik, P.C.; Marcelis, L.F.M.

    2013-01-01

    In this study, we developed a model of tomato (Solanum lycopersicum L.) fruit growth integrating cell division, cell growth and endoreduplication. The fruit was considered as a population of cells grouped in cell classes differing in their initial cell age and cell mass. The model describes fruit gr

  9. Modeling light trapping in nanostructured solar cells.

    Science.gov (United States)

    Ferry, Vivian E; Polman, Albert; Atwater, Harry A

    2011-12-27

    The integration of nanophotonic and plasmonic structures with solar cells offers the ability to control and confine light in nanoscale dimensions. These nanostructures can be used to couple incident sunlight into both localized and guided modes, enhancing absorption while reducing the quantity of material. Here we use electromagnetic modeling to study the resonances in a solar cell containing both plasmonic metal back contacts and nanostructured semiconductor top contacts, identify the local and guided modes contributing to enhanced absorption, and optimize the design. We then study the role of the different interfaces and show that Al is a viable plasmonic back contact material.

  10. Exploring leptin antagonism in ophthalmic cell models.

    Directory of Open Access Journals (Sweden)

    Laura Scolaro

    Full Text Available BACKGROUND: Emerging evidence suggests that angiogenic and pro-inflammatory cytokine leptin might be implicated in ocular neovascularization. However, the potential of inhibiting leptin function in ophthalmic cells has never been explored. Here we assessed mitogenic, angiogenic, and signaling leptin activities in retinal and corneal endothelial cells and examined the capability of a specific leptin receptor (ObR antagonist, Allo-aca, to inhibit these functions. METHODS AND RESULTS: The experiments were carried out in monkey retinal (RF/6A and bovine corneal (BCE endothelial cells. Leptin at 50-250 ng/mL stimulated the growth of both cell lines in a dose-dependent manner. The maximal mitogenic response (35±7 and 27±3% in RF6A and BCE cells, respectively was noted at 24 h of 250 ng/mL leptin treatments. Leptin-dependent proliferation was reduced to base levels with 10 and 100 nM Allo-aca in BCE and RF6A cells, respectively. In both cell lines, leptin promoted angiogenic responses, with the maximal increase in tube formation (163±10 and 133±8% in RF6A and BCE cultures, respectively observed under a 250 ng/mL leptin treatment for 3 h. Furthermore, in both cell lines 250 ng/mL leptin modulated the activity or expression of several signaling molecules involved in proliferation, inflammatory activity and angiogenesis, such as STAT3, Akt, and ERK1/2, COX2, and NFκB. In both cell lines, leptin-induced angiogenic and signaling responses were significantly inhibited with 100 nM Allo-aca. We also found that leptin increased its own mRNA and protein expression in both cell lines, and this autocrine effect was abolished by 100-250 nM Allo-aca. CONCLUSIONS: Our data provide new insights into the role of leptin in ocular endothelial cells and represent the first original report on targeting ObR in ophthalmic cell models.

  11. On the Information Service Model of College Library in the Information Age%信息时代高校图书馆信息服务模式

    Institute of Scientific and Technical Information of China (English)

    晁卫华

    2011-01-01

    The change of user's information needs and development of modern information technology in the information age require the library to continuously improve the quality and level of its services to meet user's information needs.The author analyzes from the following 6 aspects in order to improve the quality and level of library services: personalization information service models,disciplinary service models,reference service models,subject information gateway service models and information intelligent agent.%随着网络信息时代的到来,用户信息需求的改变以及现代信息技术的发展,图书馆要不断提高服务质量和水平以满足用户信息需求为主要目标。研究主要包括个性化信息服务模式、学科化服务模式、参考咨询服务模式、学科信息门户服务模式、信息智能代理服务模式和特色数据库建设6种信息服务模式,以期提高高校图书馆信息服务的质量与水平。

  12. Modeling malaria infected cells in microcirculation

    Science.gov (United States)

    Raffiee, Amir Hossein; Dabiri, Sadegh; Motavalizadeh Ardekani, Arezoo

    2016-11-01

    Plasmodim (P.) falciparum is one of the deadliest types of malaria species that invades healthy red blood cells (RBC) in human blood flow. This parasite develops through 48-hour intra-RBC process leading to significant morphological and mechanical (e.g., stiffening) changes in RBC membrane. These changes have remarkable effects on blood circulation such as increase in flow resistance and obstruction in microcirculation. In this work a computational framework is developed to model RBC suspension in blood flow using front-tracking technique. The present study focuses on blood flow behavior under normal and infected circumstances and predicts changes in blood rheology for different levels of parasitemia and hematocrit. This model allows better understanding of blood flow circulation up to a single cell level and provides us with realistic and deep insight into hematologic diseases such as malaria.

  13. Interaction of Defensins with Model Cell Membranes

    Science.gov (United States)

    Sanders, Lori K.; Schmidt, Nathan W.; Yang, Lihua; Mishra, Abhijit; Gordon, Vernita D.; Selsted, Michael E.; Wong, Gerard C. L.

    2009-03-01

    Antimicrobial peptides (AMPs) comprise a key component of innate immunity for a wide range of multicellular organisms. For many AMPs, activity comes from their ability to selectively disrupt and lyse bacterial cell membranes. There are a number of proposed models for this action, but the detailed molecular mechanism of selective membrane permeation remains unclear. Theta defensins are circularized peptides with a high degree of selectivity. We investigate the interaction of model bacterial and eukaryotic cell membranes with theta defensins RTD-1, BTD-7, and compare them to protegrin PG-1, a prototypical AMP, using synchrotron small angle x-ray scattering (SAXS). The relationship between membrane composition and peptide induced changes in membrane curvature and topology is examined. By comparing the membrane phase behavior induced by these different peptides we will discuss the importance of amino acid composition and placement on membrane rearrangement.

  14. SPLAT: Innovative Collaboration in Idaho's Libraries

    Directory of Open Access Journals (Sweden)

    Amy Vecchione

    2011-01-01

    Full Text Available Libraries face shrinking budgets, increased use, and user demand for trendy resources. This makes it difficult for librarians to find the time to keep current with innovative library trends, such as technological tools and social media developments. The Special Projects Library Action Team (SPLAT offers a new model for enhancing library services. SPLAT is a group supported by the Idaho Commission for Libraries (ICFL, the state agency responsible for assisting libraries. The members of SPLAT are innovation representatives who search and experiment with social media trends and online tools, and share the best ways to integrate them into services at all types of libraries. SPLAT members have developed SPLAT 101, an online class geared towards teaching library staff new Web technologies. Members also present about trends at conferences, blog relevant content, and engage in peer-to-peer education--all meant to demystify and exploit emergent technologies. These efforts have yielded enhanced library services, encouraged changes to policies, and increased positive user experiences. In this article we summarize how SPLAT works, explain how SPLAT has helped Idaho's libraries experiment with evolving services, analyze the success of SPLAT as a model for other states, and discuss future steps.

  15. Modeling of SONOS Memory Cell Erase Cycle

    Science.gov (United States)

    Phillips, Thomas A.; MacLeod, Todd C.; Ho, Fat H.

    2011-01-01

    Utilization of Silicon-Oxide-Nitride-Oxide-Silicon (SONOS) nonvolatile semiconductor memories as a flash memory has many advantages. These electrically erasable programmable read-only memories (EEPROMs) utilize low programming voltages, have a high erase/write cycle lifetime, are radiation hardened, and are compatible with high-density scaled CMOS for low power, portable electronics. In this paper, the SONOS memory cell erase cycle was investigated using a nonquasi-static (NQS) MOSFET model. Comparisons were made between the model predictions and experimental data.

  16. Special Library Services.

    Science.gov (United States)

    Ensley, Robert F., Ed.

    1975-01-01

    The September 1975 issue of Illinois Libraries focuses on the needs of the developmentally disabled, physically handicapped, and emotionally disturbed. Articles on library services to the blind and physically handicapped cover standards, services of local public libraries, Library of Congress programs, braille books and sound recordings,…

  17. Libraries and Learning

    Science.gov (United States)

    Rainie, Lee

    2016-01-01

    The majority of Americans think local libraries serve the educational needs of their communities and families pretty well and library users often outpace others in learning activities. But many do not know about key education services libraries provide. This report provides statistics on library usage and presents key education services provided…

  18. The "Integrated Library System."

    Science.gov (United States)

    Dowlin, Kenneth E.

    1985-01-01

    Reviews internal and external dimensions of library environment that must be taken into account by library managers when choosing an integrated library system. The selection, acquisition, and implementation stages of Maggie III--a computerized library system sensitive to the internal and external organizational environment--are described. (MBR)

  19. The library marketing toolkit

    CERN Document Server

    Potter, Ned

    2012-01-01

    A guide that offers coverage of various elements of library marketing and branding for different sectors including archives and academic, public and special libraries. It is suitable for those who are involved in promoting their library or information service, whether at an academic, public or special library or in archives or records management.

  20. Realizing the Hybrid Library.

    Science.gov (United States)

    Pinfield, Stephen; Eaton, Jonathan; Edwards, Catherine; Russell, Rosemary; Wissenburg, Astrid; Wynne, Peter

    1998-01-01

    Outlines five projects currently funded by the United Kingdom's Electronic Libraries Program (eLib): HyLiFe (Hybrid Library of the Future), MALIBU (MAnaging the hybrid Library for the Benefit of Users), HeadLine (Hybrid Electronic Access and Delivery in the Library Networked Environment), ATHENS (authentication scheme), and BUILDER (Birmingham…

  1. Library of Advanced Materials for Engineering : LAME.

    Energy Technology Data Exchange (ETDEWEB)

    Hammerand, Daniel Carl; Scherzinger, William Mark

    2007-08-01

    Constitutive modeling is an important aspect of computational solid mechanics. Sandia National Laboratories has always had a considerable effort in the development of constitutive models for complex material behavior. However, for this development to be of use the models need to be implemented in our solid mechanics application codes. In support of this important role, the Library of Advanced Materials for Engineering (LAME) has been developed in Engineering Sciences. The library allows for simple implementation of constitutive models by model developers and access to these models by application codes. The library is written in C++ and has a very simple object oriented programming structure. This report summarizes the current status of LAME.

  2. 基于SWOT模型的图书馆竞争力分析%Analysis on Library Competitiveness Based on SWOT Model

    Institute of Scientific and Technical Information of China (English)

    陈林

    2016-01-01

    SWOT分析是组织竞争力分析的重要方法,文章利用SWOT模型分析了图书馆发展中存在的机会、优势、劣势和威胁,以期为图书馆创新服务内容、转变服务方式提供有力支持。%The SWOT analysis is an important method to analyze organizations ’ competitiveness. The paper uses the SWOT model to analyze the library’s opportunities, advantages, disadvantages and threats in order to support the library service innovation.

  3. A Study on the Organization Model of Regional Library%区域图书馆发展组织模式研究

    Institute of Scientific and Technical Information of China (English)

    孙广成

    2015-01-01

    This paper discusses some characteristics of the library organization model of our country at the beginning of new century that are mainly manifested on the regional scale and management system model. It analyzes some typical models and its regional characteristics due to the difference of administrative system of our country and abroad , the unbalanced current situation of development in libraries on various regions.%文章探讨了在新世纪之初我国图书馆的区域发展在组织模式上的一些特点,这些特点主要体现在区域规模和管理体制模式上.经过分析指出,由于我国行政体制与国外的差异和各地图书馆发展的不平衡的现状使图书馆发展组织模式具有区域特色.

  4. Management and strategy of library services

    OpenAIRE

    2002-01-01

    The article deals with the management and strategy of public lending library, its significance in regional development, spreading of culture, informations, education and knowledge. The stages of development of the Regional Public Library Tábor, its organizational structure, new organizational elements and their evaluation are also mentioned. Development of the Regional Public Library Tábor is weighed up in compliance with the model of strategic management of Thompson and Stricklad. The main s...

  5. Knowledge Organization Systems for Semantic Digital Libraries

    OpenAIRE

    Babu, Preedip Balaji; Sarangi, Amit K; Madalli, Devika P.

    2012-01-01

    As the traditional knowledge organization systems (KOS) like classification, thesauri are paving way for ontologies, transtechnological data models and semantic networks of data exchange provide impetus for developing semantic digital libraries. This paper attempts to find the KOS in the early digital libraries, and how they can be integrated with the digital library architectures using emergent semantic technologies and data. Metadata remains as a core area at the heart o...

  6. Research on Universities Library Procurement Based on the Fuzzy Model%基于模糊模型下的高校图书采购研究

    Institute of Scientific and Technical Information of China (English)

    曹智贤

    2014-01-01

    In order to improve university libraries ’ rational purchasing decisions and the value and benefits of the library,this research established a fuzzy hierarchy evaluation model for book purchase, which took the research book purchasing and annual flow rate as the criterion layer in book purchasing link. Then it established an evaluation model for book purchasing, which combined the triangular fuzzy membership function with the hierarchical analysis method in order to determine whether the purchase is reasonable. Certain tests indicate that the algorithm can really help university libraries with their allocation of funds, and thus provide a good technical support in their work.%为了提高高校图书采购决策的合理化与科学性,发挥图书馆的价值与效益,本文建立了高校图书采购模糊层次评价模型,将图书采购环节的图书科研分配和年度流通率作为准则层。通过三角模糊隶属函数与层次分析方法结合形成图书采购评价模型,从而判定图书采购的合理性。通过实例分析验证该算法能够为高校图书采购资金分配提供良好的技术支持。

  7. America's Star Libraries, 2010: Top-Rated Libraries

    Science.gov (United States)

    Lyons, Ray; Lance, Keith Curry

    2010-01-01

    The "LJ" Index of Public Library Service 2010, "Library Journal"'s national rating of public libraries, identifies 258 "star" libraries. Created by Ray Lyons and Keith Curry Lance, and based on 2008 data from the IMLS, it rates 7,407 public libraries. The top libraries in each group get five, four, or three stars. All included libraries, stars or…

  8. Chemical Evolution Library for Galaxy Formation Simulation

    Science.gov (United States)

    Saitoh, Takayuki R.

    2017-02-01

    We have developed a software library for chemical evolution simulations of galaxy formation under the simple stellar population (SSP) approximation. In this library, all of the necessary components concerning chemical evolution, such as initial mass functions, stellar lifetimes, yields from Type II and Type Ia supernovae, asymptotic giant branch stars, and neutron star mergers, are compiled from the literature. Various models are pre-implemented in this library so that users can choose their favorite combination of models. Subroutines of this library return released energy and masses of individual elements depending on a given event type. Since the redistribution manner of these quantities depends on the implementation of users’ simulation codes, this library leaves it up to the simulation code. As demonstrations, we carry out both one-zone, closed-box simulations and 3D simulations of a collapsing gas and dark matter system using this library. In these simulations, we can easily compare the impact of individual models on the chemical evolution of galaxies, just by changing the control flags and parameters of the library. Since this library only deals with the part of chemical evolution under the SSP approximation, any simulation codes that use the SSP approximation—namely, particle-base and mesh codes, as well as semianalytical models—can use it. This library is named “CELib” after the term “Chemical Evolution Library” and is made available to the community.

  9. Identification of a conserved B-cell epitope on reticuloendotheliosis virus envelope protein by screening a phage-displayed random peptide library.

    Directory of Open Access Journals (Sweden)

    Mei Xue

    Full Text Available BACKGROUND: The gp90 protein of avian reticuloendotheliosis-associated virus (REV-A is an important envelope glycoprotein, which is responsible for inducing protective antibody immune responses in animals. B-cell epitopes on the gp90 protein of REV have not been well studied and reported. METHODS AND RESULTS: This study describes the identification of a linear B-cell epitope on the gp90 protein by screening a phage-displayed 12-mer random peptide library with the neutralizing monoclonal antibody (mAb A9E8 directed against the gp90. The mAb A9E8 recognized phages displaying peptides with the consensus motif SVQYHPL. Amino acid sequence of the motif exactly matched (213SVQYHPL(219 of the gp90. Further identification of the displayed B cell epitope was conducted using a set of truncated peptides expressed as GST fusion proteins and the Western blot results indicated that (213SVQYHPL(219 was the minimal determinant of the linear B cell epitope recognized by the mAb A9E8. Moreover, an eight amino acid peptide SVQYHPLA was proven to be the minimal unit of the epitope with the maximal binding activity to mAb A9E8. The REV-A-positive chicken serum reacted with the minimal linear epitopes in Western blot, revealing the importance of the eight amino acids of the epitope in antibody-epitope binding activity. Furthermore, we found that the epitope is a common motif shared among REV-A and other members of REV group. CONCLUSIONS AND SIGNIFICANCE: We identified (213SVQYHPL(219 as a gp90-specific linear B-cell epitope recognized by the neutralizing mAb A9E8. The results in this study may have potential applications in development of diagnostic techniques and epitope-based marker vaccines against REV-A and other viruses of the REV group.

  10. A generic simulation cell method for developing extensible, efficient and readable parallel computational models

    Science.gov (United States)

    Honkonen, I.

    2015-03-01

    I present a method for developing extensible and modular computational models without sacrificing serial or parallel performance or source code readability. By using a generic simulation cell method I show that it is possible to combine several distinct computational models to run in the same computational grid without requiring modification of existing code. This is an advantage for the development and testing of, e.g., geoscientific software as each submodel can be developed and tested independently and subsequently used without modification in a more complex coupled program. An implementation of the generic simulation cell method presented here, generic simulation cell class (gensimcell), also includes support for parallel programming by allowing model developers to select which simulation variables of, e.g., a domain-decomposed model to transfer between processes via a Message Passing Interface (MPI) library. This allows the communication strategy of a program to be formalized by explicitly stating which variables must be transferred between processes for the correct functionality of each submodel and the entire program. The generic simulation cell class requires a C++ compiler that supports a version of the language standardized in 2011 (C++11). The code is available at https://github.com/nasailja/gensimcell for everyone to use, study, modify and redistribute; those who do are kindly requested to acknowledge and cite this work.

  11. An internal ribosome entry site (IRES mutant library for tuning expression level of multiple genes in mammalian cells.

    Directory of Open Access Journals (Sweden)

    Esther Y C Koh

    Full Text Available A set of mutated Encephalomyocarditis virus (EMCV internal ribosome entry site (IRES elements with varying strengths is generated by mutating the translation initiation codons of 10(th, 11(th, and 12(th AUG to non-AUG triplets. They are able to control the relative expression of multiple genes over a wide range in mammalian cells in both transient and stable transfections. The relative strength of each IRES mutant remains similar in different mammalian cell lines and is not gene specific. The expressed proteins have correct molecular weights. Optimization of light chain over heavy chain expression by these IRES mutants enhances monoclonal antibody expression level and quality in stable transfections. Uses of this set of IRES mutants can be extended to other applications such as synthetic biology, investigating interactions between proteins and its complexes, cell engineering, multi-subunit protein production, gene therapy, and reprogramming of somatic cells into stem cells.

  12. Deep Sequencing of Suppression Subtractive Hybridisation Drought and Recovery Libraries of the Non-model Crop Trifolium repens L.

    Science.gov (United States)

    Bisaga, Maciej; Lowe, Matthew; Hegarty, Matthew; Abberton, Michael; Ravagnani, Adriana

    2017-01-01

    White clover is a short-lived perennial whose persistence is greatly affected by abiotic stresses, particularly drought. The aim of this work was to characterize its molecular response to water deficit and recovery following re-hydration to identify targets for the breeding of tolerant varieties. We created a white clover reference transcriptome of 16,193 contigs by deep sequencing (mean base coverage 387x) four Suppression Subtractive Hybridization (SSH) libraries (a forward and a reverse library for each treatment) constructed from young leaf tissue of white clover at the onset of the response to drought and recovery. Reads from individual libraries were then mapped to the reference transcriptome and processed comparing expression level data. The pipeline generated four robust sets of transcripts induced and repressed in the leaves of plants subjected to water deficit stress (6,937 and 3,142, respectively) and following re-hydration (6,695 and 4,897, respectively). Semi-quantitative polymerase chain reaction was used to verify the expression pattern of 16 genes. The differentially expressed transcripts were functionally annotated and mapped to biological processes and pathways. In agreement with similar studies in other crops, the majority of transcripts up-regulated in response to drought belonged to metabolic processes, such as amino acid, carbohydrate, and lipid metabolism, while transcripts involved in photosynthesis, such as components of the photosystem and the biosynthesis of photosynthetic pigments, were up-regulated during recovery. The data also highlighted the role of raffinose family oligosaccharides (RFOs) and the possible delayed response of the flavonoid pathways in the initial response of white clover to water withdrawal. The work presented in this paper is to our knowledge the first large scale molecular analysis of the white clover response to drought stress and re-hydration. The data generated provide a valuable genomic resource for marker

  13. Modeling Anomalous Hysteresis in Perovskite Solar Cells.

    Science.gov (United States)

    van Reenen, Stephan; Kemerink, Martijn; Snaith, Henry J

    2015-10-01

    Organic-inorganic lead halide perovskites are distinct from most other semiconductors because they exhibit characteristics of both electronic and ionic motion. Accurate understanding of the optoelectronic impact of such properties is important to fully optimize devices and be aware of any limitations of perovskite solar cells and broader optoelectronic devices. Here we use a numerical drift-diffusion model to describe device operation of perovskite solar cells. To achieve hysteresis in the modeled current-voltage characteristics, we must include both ion migration and electronic charge traps, serving as recombination centers. Trapped electronic charges recombine with oppositely charged free electronic carriers, of which the density depends on the bias-dependent ion distribution in the perovskite. Our results therefore show that reduction of either the density of mobile ionic species or carrier trapping at the perovskite interface will remove the adverse hysteresis in perovskite solar cells. This gives a clear target for ongoing research effort and unifies previously conflicting experimental observations and theories.

  14. Methods for combinatorial and parallel library design.

    Science.gov (United States)

    Schnur, Dora M; Beno, Brett R; Tebben, Andrew J; Cavallaro, Cullen

    2011-01-01

    Diversity has historically played a critical role in design of combinatorial libraries, screening sets and corporate collections for lead discovery. Large library design dominated the field in the 1990s with methods ranging anywhere from purely arbitrary through property based reagent selection to product based approaches. In recent years, however, there has been a downward trend in library size. This was due to increased information about the desirable targets gleaned from the genomics revolution and to the ever growing availability of target protein structures from crystallography and homology modeling. Creation of libraries directed toward families of receptors such as GPCRs, kinases, nuclear hormone receptors, proteases, etc., replaced the generation of libraries based primarily on diversity while single target focused library design has remained an important objective. Concurrently, computing grids and cpu clusters have facilitated the development of structure based tools that screen hundreds of thousands of molecules. Smaller "smarter" combinatorial and focused parallel libraries replaced those early un-focused large libraries in the twenty-first century drug design paradigm. While diversity still plays a role in lead discovery, the focus of current library design methods has shifted to receptor based methods, scaffold hopping/bio-isostere searching, and a much needed emphasis on synthetic feasibility. Methods such as "privileged substructures based design" and pharmacophore based design still are important methods for parallel and small combinatorial library design. This chapter discusses some of the possible design methods and presents examples where they are available.

  15. Toy Library and International Toy Library Association

    OpenAIRE

    Kamaraj, Işık

    2013-01-01

    Toy libraries are resource centers that provides assistance to young children and theirfamilies, gives consultancy service and information about plays, offers play materials andeducational activities and supplies appropriate materials and toys for child development aswell as contributing the development of children. Toy libraries are in commission all over theworld since 1935. The first toy library is opened in America, then in Sweden, England,Canada and Australia respectively. Today, there a...

  16. New object-oriented hygrothermal model library for calculating hygrothermal and hygienic comfort in rooms; Neue objektorientierte hygrothermische Modellbibliothek zur Ermittlung des hygrothermischen und hygienischen Komforts in Raeumen

    Energy Technology Data Exchange (ETDEWEB)

    Nouidui, Thierry; Sedlbauer, Klaus [Fraunhofer-Institut fuer Bauphysik (IBP), Institutsteil Holzkirchen, Valley (Germany); Nytsch-Geusen, Christoph [Universitaet der Kuenste Berlin (Germany). Fakultaet Gestaltung, Institut fuer Architektur und Staedtebau; Kiessl, Kurt [Fakulaet Architektur, Bauhaus-Universitaet Weimar (Germany)

    2009-10-15

    Developing energy-optimized ventilation strategies for moisture-related problems and the design and renovation of energy saving buildings requires an accurate knowledge of how hygrothermal components and buildings behave. These issues can be resolved with the aid of simulation tools before actually putting measurement technology into practice. The complexity of these issues produces complex models which can soon become unmanageable if suitable methods of description are not used. Due to their generic concepts such as class principle, inheritance principle, aggregation principle and polymorphism, modelling language standards such as Modelica enable complex systems such as these to be broken down into simple subsystems which can be verified and then reassembled. Research so far has lacked generic simulation tools for simulating components and buildings to enable a hygrothermal analysis with strong interactions between the behaviour of components, building envelope, building use and room conditions. Therefore the aim of this work was to develop a flexible, object-oriented, hygrothermal model library based on the Modelica modelling language for simulating and analysing the interactions between room conditions, the behaviour of components, building envelope and building use. This model library should be used for developing an energy-optimized ventilation system regulated according to demand in order to minimize the risk of mould forming while maintaining hygrothermal and hygienic comfort. The component and model library should be validated in example configurations in both simulations and trials. [German] Die Entwicklung energetisch optimierter Lueftungsstrategien fuer feuchtebedingte Probleme bzw. die Planung und die Sanierung energiesparender Gebaeude benoetigt eine genaue Kenntnis ueber das hygrothermische Bauteil- und Gebaeudeverhalten. Diese Fragestellungen koennen vor der eigentlichen messtechnischen Ausfuehrung mit Hilfe von Simulationstools beantwortet werden

  17. Academic library use of ebooks

    CERN Document Server

    2014-01-01

    This 165-page international study looks closely at how academic libraries are using eBooks. It helps librarians to answer questions such as: how fast is eBook spending growing? Which eBook purchasing models are growing fastest? Subscription models that allow unlimited access” pay per view models? Outright ownership? Other models? What percentage of eBook purchases are through consortia? What percentage direct from publishers? What percentage through aggregators?

  18. Training library patrons the ADDIE way

    CERN Document Server

    Wegener, Debby

    2006-01-01

    This book takes an informal and in-depth look at the five steps of the ADDIE model - Analysis, Design, Development, Implementation and Evaluation - as used in library training programmes. With hints and tips and practical advice from other trainers, the aims of the book are to (1) make the training of library patrons a simple task and (2) to show library staff that training can be rewarding and extremely satisfying. Anyone who has had to design a library training programme will know that it can be quite a daunting task without guidelines, but when it comes to the various learning theories and

  19. Updated Core Libraries of the ALPS Project

    CERN Document Server

    Gaenko, A; Carcassi, G; Chen, T; Chen, X; Dong, Q; Gamper, L; Gukelberger, J; Igarashi, R; Iskakov, S; Könz, M; LeBlanc, J P F; Levy, R; Ma, P N; Paki, J E; Shinaoka, H; Todo, S; Troyer, M; Gull, E

    2016-01-01

    The open source ALPS (Algorithms and Libraries for Physics Simulations) project provides a collection of physics libraries and applications, with a focus on simulations of lattice models and strongly correlated systems. The libraries provide a convenient set of well-documented and reusable components for developing condensed matter physics simulation code, and the applications strive to make commonly used and proven computational algorithms available to a non-expert community. In this paper we present an updated and refactored version of the core ALPS libraries geared at the computational physics software development community, rewritten with focus on documentation, ease of installation, and software maintainability.

  20. Introduction to the library and information professions

    CERN Document Server

    Greer, Roger; Fowler, Susan

    2013-01-01

    In this rapidly changing, knowledge-based society, library and information professionals require a broad understanding of the profession. Introduction to the Library and Information Professions, Second Edition presents a toolbox of models that enable this essential understanding for undergraduate and graduate students in library and information science programs as well as practicing professionals seeking continuing education. The materials in this second edition reflect the latest trends in the library and information profession, including services and issues that stem from new advances in te

  1. Interconnection of University Libraries:Patterns and Models%高校图书馆互联模式探讨与模型构建

    Institute of Scientific and Technical Information of China (English)

    鲍雅丽; 吴清强

    2014-01-01

    云计算环境下,传统图书馆交流共享的技术基础和服务方式发生了至关重要的变化,关于馆际交流和资源共享的研究已成为数字图书馆研究的热点。文章以互联模式探讨高校图书馆新的交流共享模式,从整体上提升和改善资源的建设、服务的能力。通过信息资源数字化、服务平台数字化,来优化自身的馆际交流、资源共享和信息服务体系,在数字时代实现自身的数字化。%In cloud computing environment, an essential change has taken place in the basis of technology and the service of communication and sharing in traditional libraries. The study of interlibrary communication and resource sharing has become a hot spot of research on digital library. To explore new communication and sharing mode of the university library, we should base on the interconnection model to promote and improve the ability on the construction and service of resources on the whole. Also we can optimize our own interlibrary exchange, resource sharing and information service system, and realize our own digitalization in the digital age through the digital information resources and the digital service platform.

  2. A General Econometric Model of the Determinants of Library Subscription Prices of Scholarly Journals: The Role of Exchange Rate Risk and Other Factors.

    Science.gov (United States)

    Chressanthis, George A.; Chressanthis, June D.

    1994-01-01

    Provides regression-based empirical evidence of the effects of variations in exchange rate risk on 1985 library prices of the top-ranked 99 journals in economics. The relationship between individual journal prices and library prices is shown, and other factors associated with increases and decreases in library journal prices are given. (Contains…

  3. The library of virtual model of engineering graphics based on smart phone%基于智能手机的工程图学虚拟模型库的研究与实现

    Institute of Scientific and Technical Information of China (English)

    邱龙辉; 楚电明; 叶琳

    2013-01-01

    A virtual model library of engineering graphics is established to solve the problem of the time and space limit to the use of existing virtual model library. The model library system structure is designed, the mobile device operating system is analyzed, and the development and operation platform of the virtual model library is determined. Based on the analysis of the primitive drawing method of the class of Mesh, its data needs and VRML97 data format, the document analytical class of VRML is designed. The 3D browser of VRML model is designed on the mobile device. The virtual model library of engineering graphics based on mobile device is realized. The system improves the practicability of the virtual model library, successfully expand space and time in use of the virtual model.%针对基于PC的工程图学虚拟模型库在使用空间和时间的限制,论文对用于工程图学移动虚拟模型库进行了研究.设计了模型库系统结构,分析研究了智能手机的操作系统,选择了虚拟模型库的开发及运行平台.通过分析Direet3D Mobile中Mesh类的图元绘制方式、数据需求和VRML97的数据格式,设计了VRML的文件解析类,实现了移动设备上的VRML模型的3D浏览器,实现了基于智能手机的工程图学虚拟模型库的设计.该系统提高了虚拟模型库的实用性,成功地拓展了虚拟模型库的使用空间和时间.

  4. Enriching Peptide Libraries for Binding Affinity and Specificity Through Computationally Directed Library Design.

    Science.gov (United States)

    Foight, Glenna Wink; Chen, T Scott; Richman, Daniel; Keating, Amy E

    2017-01-01

    Peptide reagents with high affinity or specificity for their target protein interaction partner are of utility for many important applications. Optimization of peptide binding by screening large libraries is a proven and powerful approach. Libraries designed to be enriched in peptide sequences that are predicted to have desired affinity or specificity characteristics are more likely to yield success than random mutagenesis. We present a library optimization method in which the choice of amino acids to encode at each peptide position can be guided by available experimental data or structure-based predictions. We discuss how to use analysis of predicted library performance to inform rounds of library design. Finally, we include protocols for more complex library design procedures that consider the chemical diversity of the amino acids at each peptide position and optimize a library score based on a user-specified input model.

  5. The Application of Library Crowdsourcing Model in Information Education%众包在大学生信息素养教育中的应用

    Institute of Scientific and Technical Information of China (English)

    肖检蓉

    2011-01-01

    我国大学生的信息素养现状距信息时代的能力要求还有较大差距。主要原因之一就是现有的信息素养教育模式不能很好地适应人才培养要求。众包作为一种全新的理念和运作模式,成为支持网络时代图书馆创新的有效途径。通过总结信息素养教育的主要教学形式,以新生入馆教育为例,对众包模式的组织与管理进行了实践探索。%The main reason that there exists ucation and the requirement of the information a comparatively big gap in our country between the information ed- era is that the current information education model cannot perfectly meet the need of the innovative talents training, which must be changed through exploring a new education model. As a new idea and performance model, crowdsourcing will be an effective road to support library innovation at the net- work time. By analyzing main teaching models in information education, the paper provides a practical exploration on the organization and administration of crowdsourcing model through the example of freshmen's education on accessing to the library of universities.

  6. Application of Cloud Technology in Digital Library

    Directory of Open Access Journals (Sweden)

    D Kishore Kumar

    2012-05-01

    Full Text Available Libraries may soon be building and managing their own data centers. This model would letlibraries maintain more control over the applications and data stores that containsensitive, private information about patrons. Provisioning and maintenance of infrastructure forWeb based digital library present several challenges. In this paper we discuss problems facedwith digital library and development efforts to overcome that problem. Infrastructure virtualizationand cloud computing are particularly attractive choices which is challenged by both growth inthe size of the indexed document collection, new features and most prominently usage. With thepurpose of applying Cloud Computing to university library, the paper describes the currentstatus of user service models in university libraries. Then it proposed to improve current userservice model with Cloud Computing. This paper explores some of the security issuessurrounding data location, mobility and availability.

  7. Advanced methods of solid oxide fuel cell modeling

    CERN Document Server

    Milewski, Jaroslaw; Santarelli, Massimo; Leone, Pierluigi

    2011-01-01

    Fuel cells are widely regarded as the future of the power and transportation industries. Intensive research in this area now requires new methods of fuel cell operation modeling and cell design. Typical mathematical models are based on the physical process description of fuel cells and require a detailed knowledge of the microscopic properties that govern both chemical and electrochemical reactions. ""Advanced Methods of Solid Oxide Fuel Cell Modeling"" proposes the alternative methodology of generalized artificial neural networks (ANN) solid oxide fuel cell (SOFC) modeling. ""Advanced Methods

  8. Information Technology Investments in Research Libraries.

    Science.gov (United States)

    Rosenblatt, Susan

    1999-01-01

    Examines investments that will ensure that library information technology (IT) meets future academic needs. Looks back on the introduction of IT to research libraries. Assesses outcomes of IT investments in terms of cost and service benefits, and then focuses on developing new service models. (AEF)

  9. The Marketing of Public Library Services.

    Science.gov (United States)

    Dragon, Andrea C.

    1983-01-01

    Defines the concept of marketing and relates models involving the exchanges and transactions of markets and charities to services offered by libraries. Market segmentation, understanding the behavior of markets, competition, and movement toward a market-oriented library are highlighted. Nineteen references are cited. (EJS)

  10. Librarians and Libraries Supporting Open Access Publishing

    Science.gov (United States)

    Richard, Jennifer; Koufogiannakis, Denise; Ryan, Pam

    2009-01-01

    As new models of scholarly communication emerge, librarians and libraries have responded by developing and supporting new methods of storing and providing access to information and by creating new publishing support services. This article will examine the roles of libraries and librarians in developing and supporting open access publishing…

  11. Modeling Degradation in Solid Oxide Electrolysis Cells

    Energy Technology Data Exchange (ETDEWEB)

    Manohar S. Sohal; Anil V. Virkar; Sergey N. Rashkeev; Michael V. Glazoff

    2010-09-01

    Idaho National Laboratory has an ongoing project to generate hydrogen from steam using solid oxide electrolysis cells (SOECs). To accomplish this, technical and degradation issues associated with the SOECs will need to be addressed. This report covers various approaches being pursued to model degradation issues in SOECs. An electrochemical model for degradation of SOECs is presented. The model is based on concepts in local thermodynamic equilibrium in systems otherwise in global thermodynamic no equilibrium. It is shown that electronic conduction through the electrolyte, however small, must be taken into account for determining local oxygen chemical potential, , within the electrolyte. The within the electrolyte may lie out of bounds in relation to values at the electrodes in the electrolyzer mode. Under certain conditions, high pressures can develop in the electrolyte just near the oxygen electrode/electrolyte interface, leading to oxygen electrode delamination. These predictions are in accordance with the reported literature on the subject. Development of high pressures may be avoided by introducing some electronic conduction in the electrolyte. By combining equilibrium thermodynamics, no equilibrium (diffusion) modeling, and first-principles, atomic scale calculations were performed to understand the degradation mechanisms and provide practical recommendations on how to inhibit and/or completely mitigate them.

  12. 数字图书馆云服务平台模型的构建探究%Study on the construction of the cloud service model of Digital Library

    Institute of Scientific and Technical Information of China (English)

    赵蕊荣

    2014-01-01

    The current library collection structure, electronic resources occupies a considerable proportion in library collection resources.Digital,network and information library is the main development direction of the future library.Based on the analysis of "cloud computing" as the breakthrough,discusses the principle and architecture of the model cloud service platform of digital library,and briefly discussed the problem system construction of digital resources construction in Library of cloud.%就目前图书馆藏书结构而言,电子资源在图书馆藏书资源中占有相当比重。图书馆的数字化、网络化与信息话是今后图书馆的主要发展方向。本文以“云计算”概念的分析为切入,讨论了数字图书馆云服务平台构建原理以及其模型的架构,同时粗略探讨了图书馆数字资源云建设的体系建设问题。

  13. 高校图书馆战略管理模型的构建%The Construction of University Library 's Strategic Management Model

    Institute of Scientific and Technical Information of China (English)

    李情

    2015-01-01

    利用定性方法,设计了高校图书馆管理战略模型,模型包括战略制定、战略实施及战略评价与控制3个基本组件,通过前期、中期、后期3个连续规划阶段的实施,确保这些阶段的最佳发展和执行,并通过核准、质量控制、沟通与参与这3个连接渠道把3个组件连成一个整体,旨在为高校图书馆克服在未来策略中可能面临的障碍提供指导.%Using qualitative analytic method, this paper designs university library's strategic management model, which includes three basic components of strategic formulation, strategic implementation and strategic evaluation and control, and through the implementation of the three consecutive planning stages (early, middle and late stages), ensures the best development and execution of these stages, and connects the three components into a whole through three connecting channels of the approval, quality control and communication and participation in order to provide the guidance for university library to overcome the obstacles that may be faced in the future strategy.

  14. An Analytic Model for the Overdue Library Books%图书馆超期图书的原因分析模型

    Institute of Scientific and Technical Information of China (English)

    秦雄伟; 陈超; 于音; 杨峻峰

    2011-01-01

    The data of the overdue books of Southwest University Library were statistically processed and the causes for the failure of their timely return were classified into 3 categories: unintentional negligence about the deadline of return,the need for keeping the books for a longer period due to research work and intentional refusal to return the borrowed books due to low standards of overdue fines.Then an AHP(analytic hierarchy process) model was set up and the weight vector was calculated with the iterative method,by which the most probable cause for overdue books was identified.Finally,based on the results obtained,some proposals were offered for the improvement of the library work.%对西南大学图书馆的部分借书未还数据进行统计归类,并且将借书超期不还的原因归为3类,即无意错过归还期限、科研需要长期使用、罚款数目少而故意不还.建立层次分析结构模型,应用迭代法计算出权向量;然后根据权向量找出最可能的借书超期不还的原因;最后根据所得结果为图书馆提出合理的建议.

  15. Research on New Models of the Collaborative Subject Services in Libraries%图书馆协同化学科服务新模式研究

    Institute of Scientific and Technical Information of China (English)

    万文娟

    2012-01-01

    当前学科服务供需矛盾日益凸显,在学科服务过程中引入协同机制势在必行。协同化学科服务主要有5种新模式,即学科馆员团队内部协作、学科馆员与其他馆员协作、学科馆员与用户代表协作、学科服务馆际协作、学科馆员与书商和数据商协作。图书馆可通过确立共同目标、识别协同机会、评价协同价值、倡导沟通交流、应用高新技术等策略实现协同化学科服务。%Presently, the cOntradiction between the supply and the demand of subject services has become prominent increasingly, so collaborative mechanisms must be introduced in the process of subject services. There are five new models of collaborative subject services such as collaboration between subject librarians, collaboration between subject librarians and other librarians, collaboration between subject librarians and user representatives, collaboration between libraries, collaboration between subject librarians and data providers or booksellers. Libraries could realize collaborative subject services by establishing common goals, identifying collaborative opportunities, evaluating collaborative values, advocating communication and utilizing high technologies.

  16. Metacognitive Model of Tacit Knowledge Transfer in Human Library%真人图书馆隐性知识转移的元认知模式

    Institute of Scientific and Technical Information of China (English)

    王培林

    2016-01-01

    To find a solution for“how to transfer tacit knowledge in human library”,this article combines Flavell’ s metacognitive theory with Dr. Dong’s metacognitive ideas to explore the metacognitive model of tacit knowledge transfer in human library and its operating mechanism based on the analysis of metacognitive dimensions of tacit knowledge. The results show that it need to establish a “3+1” metacognition mechanism for tacit knowledge transfer in human library in order to achieve the transfer successfully.%文章针对真人图书馆中隐性知识如何转移,引入Flavell的元认知理论及董奇的元认知观点,在分析隐性知识元认知维度的基础上,探索真人图书馆隐性知识转移的元认知模式,据此提出推动真人图书馆隐性知识转移的运行机制。研究结果显示,要成功实现真人图书馆隐性知识转移,需要建立“3+1”真人图书馆隐性知识转移元认知机制。

  17. Library Advocacy Now! Library Advocate's Handbook. [Videotape.

    Science.gov (United States)

    American Library Association Video/Library Video Network, Towson, MD.

    Libraries are one of the world's greatest assets. Changes in the political, social, and economic climate in the U.S. mean that people cannot take public access to information for granted. Intense competition for public, private, and institutional dollars makes it more crucial than ever that policymakers understand that libraries--public, school,…

  18. Enantioselective Benzylic Hydroxylation Catalysed by P450 Monooxygenases: Characterisation of a P450cam Mutant Library and Molecular Modelling.

    Science.gov (United States)

    Eichler, Anja; Gricman, Łukasz; Herter, Susanne; Kelly, Paul P; Turner, Nicholas J; Pleiss, Jürgen; Flitsch, Sabine L

    2016-03-02

    Cytochrome P450 monooxygenases can catalyse the stereoselective C-H activation of a very broad range of substrates. Prediction and control of enantioselectivity of this enzyme class is of great interest for the synthesis of high-value chiral molecules. Here we have used a combination of molecular dynamics simulations and experimental screening to study the enantioselectivity of a library of active-site mutants of chimeric P450cam-RhFRed towards the benzylic hydroxylation of structurally related regioisomers of ethylmethylbenzene. Small variations either in substrate structure or in enzyme active site architecture were shown to lead to dramatic changes in enantioselectivity; this was broadly in agreement with computational predictions. In addition to validating computational approaches, these studies have provided us with a deeper understanding of effects that might control stereoselectivity in these biooxidation reactions.

  19. A Physics-based Analytical Model for Perovskite Solar Cells

    OpenAIRE

    Sun, Xingshu; Asadpour, Reza; Nie, Wanyi; Mohite, Aditya D.; Alam, Muhammad A.

    2015-01-01

    Perovskites are promising next-generation absorber materials for low-cost and high-efficiency solar cells. Although perovskite cells are configured similar to the classical solar cells, their operation is unique and requires development of a new physical model for characterization, optimization of the cells, and prediction of the panel performance. In this paper, we develop such a physics-based analytical model to describe the operation of different types of perovskite solar cells, explicitly...

  20. Modelling familial dysautonomia in human induced pluripotent stem cells

    OpenAIRE

    Lee, Gabsang; Studer, Lorenz

    2011-01-01

    Induced pluripotent stem (iPS) cells have considerable promise as a novel tool for modelling human disease and for drug discovery. While the generation of disease-specific iPS cells has become routine, realizing the potential of iPS cells in disease modelling poses challenges at multiple fronts. Such challenges include selecting a suitable disease target, directing the fate of iPS cells into symptom-relevant cell populations, identifying disease-related phenotypes and showing reversibility of...

  1. Libraries - LIBRARIES_ISL_IN: Libraries in Indiana (Indiana State Library, Point Shapefile)

    Data.gov (United States)

    NSGIC GIS Inventory (aka Ramona) — LIBRARIES_ISL_IN is a point shapefile showing the locations of 528 libraries included in Microsoft Excel spreadsheets that are downloadable from the Web page named...

  2. Reutilizing Existing Library Space.

    Science.gov (United States)

    Davis, Marlys Cresap

    1987-01-01

    This discussion of the reutilization of existing library space reviews the decision process and considerations for implementation. Two case studies of small public libraries which reassigned space to better use are provided, including floor plans. (1 reference) (MES)

  3. Libraries serving dialogue

    CERN Document Server

    Dupont, Odile

    2014-01-01

    This book based on experiences of libraries serving interreligious dialogue, presents themes like library tools serving dialogue between cultures, collections dialoguing, children and young adults dialoguing beyond borders, story telling as dialog, librarians serving interreligious dialogue.

  4. Integrated library systems.

    Science.gov (United States)

    Goldstein, C M

    1983-07-01

    The development of integrated library systems is discussed. The four major discussion points are (1) initial efforts; (2) network resources; (3) minicomputer-based systems; and (4) beyond library automation. Four existing systems are cited as examples of current systems.

  5. A transient model to simulate HTPEM fuel cell impedance spectra

    DEFF Research Database (Denmark)

    Vang, Jakob Rabjerg; Andreasen, Søren Juhl; Kær, Søren Knudsen

    2012-01-01

    This paper presents a spatially resolved transient fuel cell model applied to the simulation of high temperature PEM fuel cell impedance spectra. The model is developed using a 2D finite volume method approach. The model is resolved along the channel and across the membrane. The model considers...

  6. Library planning in Germany

    Directory of Open Access Journals (Sweden)

    Friedrich Geisselmann

    2003-12-01

    Full Text Available The position and the efficiency of German libraries are rather ambivalent. On the one hand the infrastructure is quite well developed: 2000 public library systems with full time personnel, 275 million books issued, 75 million Euro for acquisitions; 280 scientific general libraries, 60 million books issued, 1300 million Euro for acquisitions. Nevertheless there are a lot of problems, which arise from the administrative structure and the political position of libraries.

  7. FY 2008 Public Libraries Survey

    Data.gov (United States)

    Institute of Museum and Library Services — Dig into FY 2008 data on public library systems (referred to as administrative entities in the Public Libraries Survey) and main libraries, branches, and bookmobiles...

  8. Biomechanics of epithelial cell islands analyzed by modeling and experimentation

    CERN Document Server

    Coburn, Luke; Noppe, Adrian; Caldwell, Benjamin J; Moussa, Elliott; Yap, Chloe; Priya, Rashmi; Lobaskin, Vladimir; Roberts, Anthony P; Yap, Alpha S; Neufeld, Zoltan; Gomez, Guillermo A

    2016-01-01

    We generated a new computational approach to analyze the biomechanics of epithelial cell islands that combines both vertex and contact-inhibition-of-locomotion models to include both cell-cell and cell-substrate adhesion. Examination of the distribution of cell protrusions (adhesion to the substrate) in the model predicted high order profiles of cell organization that agree with those previously seen experimentally. Cells acquired an asymmetric distribution of protrusions (and traction forces) that decreased when moving from the edge to the island center. Our in silico analysis also showed that tension on cell-cell junctions (and monolayer stress) is not homogeneous across the island. Instead it is higher at the island center and scales up with island size, which we confirmed experimentally using laser ablation assays and immunofluorescence. Moreover, our approach has the minimal elements necessary to reproduce mechanical crosstalk between both cell-cell and cell substrate adhesion systems. We found that an i...

  9. A sub-cellular viscoelastic model for cell population mechanics.

    Directory of Open Access Journals (Sweden)

    Yousef Jamali

    Full Text Available Understanding the biomechanical properties and the effect of biomechanical force on epithelial cells is key to understanding how epithelial cells form uniquely shaped structures in two or three-dimensional space. Nevertheless, with the limitations and challenges posed by biological experiments at this scale, it becomes advantageous to use mathematical and 'in silico' (computational models as an alternate solution. This paper introduces a single-cell-based model representing the cross section of a typical tissue. Each cell in this model is an individual unit containing several sub-cellular elements, such as the elastic plasma membrane, enclosed viscoelastic elements that play the role of cytoskeleton, and the viscoelastic elements of the cell nucleus. The cell membrane is divided into segments where each segment (or point incorporates the cell's interaction and communication with other cells and its environment. The model is capable of simulating how cells cooperate and contribute to the overall structure and function of a particular tissue; it mimics many aspects of cellular behavior such as cell growth, division, apoptosis and polarization. The model allows for investigation of the biomechanical properties of cells, cell-cell interactions, effect of environment on cellular clusters, and how individual cells work together and contribute to the structure and function of a particular tissue. To evaluate the current approach in modeling different topologies of growing tissues in distinct biochemical conditions of the surrounding media, we model several key cellular phenomena, namely monolayer cell culture, effects of adhesion intensity, growth of epithelial cell through interaction with extra-cellular matrix (ECM, effects of a gap in the ECM, tensegrity and tissue morphogenesis and formation of hollow epithelial acini. The proposed computational model enables one to isolate the effects of biomechanical properties of individual cells and the

  10. Library Skills Workbook.

    Science.gov (United States)

    Miller, Constance; And Others

    This self-paced library skills workbook provides incoming students with an introduction to the physical arrangement and use of the university libraries. Divided into two sections, the first contains explanations of the catalogs, classification system, and various library resources. The second consists of practical exercises keyed to the…

  11. Biology Library Workbook.

    Science.gov (United States)

    Miller, Constance; And Others

    A library skills workbook provides college biology students with an introduction to biological library resources. Divided into two sections, the first contains explanations of the various steps in the library research process. The second consists of exercises keyed to the explanatory chapters of the first section. (RAA)

  12. Public Library Finance.

    Science.gov (United States)

    Mason, Marilyn Gell

    This study reviews trends in public library finance; examines recent political, economic, and technological changes; and assesses the impact of these changes on public library services. A history of the public library in America is presented, as well as an analysis of the principles of economics and public finance which reveals that current…

  13. The Electronic, Eclectic Library.

    Science.gov (United States)

    Dowlin, Kenneth E.

    1980-01-01

    Utilization of telecommunications and computer technology to increase access to information is identified as a primary goal for public libraries. To further service in the future, libraries should consider database services, online access to library resources, online community conferencing, community databases, network resource sharing,…

  14. Body Basics Library

    Science.gov (United States)

    ... of Healthy Breakfasts Shyness About the Body Basics Library KidsHealth > For Teens > About the Body Basics Library A A A Did you ever wonder what ... system, part, and process works. Use this medical library to find out about basic human anatomy, how ...

  15. Learning Boost C++ libraries

    CERN Document Server

    Mukherjee, Arindam

    2015-01-01

    If you are a C++ programmer who has never used Boost libraries before, this book will get you up-to-speed with using them. Whether you are developing new C++ software or maintaining existing code written using Boost libraries, this hands-on introduction will help you decide on the right library and techniques to solve your practical programming problems.

  16. Body Basics Library

    Science.gov (United States)

    ... of Healthy Breakfasts Shyness About the Body Basics Library KidsHealth > For Teens > About the Body Basics Library Print A A A Did you ever wonder ... system, part, and process works. Use this medical library to find out about basic human anatomy, how ...

  17. Technostress and Library Values.

    Science.gov (United States)

    Gorman, Michael

    2001-01-01

    Discusses information overload and society's and libraries' responses to technology. Considers eight values that libraries should focus on and how they relate to technology in libraries: democracy, stewardship, service, intellectual freedom, privacy, rationalism, equity of access, and building harmony and balance. (LRW)

  18. A Truly Bookless Library

    Science.gov (United States)

    Kolowich, Steve

    2011-01-01

    The difference between the University of Texas at San Antonio's Applied Engineering and Technology Library and other science-focused libraries is not that its on-site collection is also available electronically. It is that its on-site collection is only available electronically. The idea of libraries with no bound books has been a recurring theme…

  19. Changing State Digital Libraries

    Science.gov (United States)

    Pappas, Marjorie L.

    2006-01-01

    Research has shown that state virtual or digital libraries are evolving into websites that are loaded with free resources, subscription databases, and instructional tools. In this article, the author explores these evolving libraries based on the following questions: (1) How user-friendly are the state digital libraries?; (2) How do state digital…

  20. Merchandising Your Library.

    Science.gov (United States)

    Sivulich, Kenneth G.

    1989-01-01

    Discusses library circulation figures as a reflection of the success of library services and describes merchandising techniques that have produced a 137 percent circulation increase at Queens Borough Public Library over the past seven years. Merchandising techniques such as minibranches, displays, signage, dumps, and modified shelving are…

  1. Marketing Academic Libraries

    Science.gov (United States)

    Mallon, Melissa, Ed.

    2013-01-01

    Ask any academic librarian if marketing their library and its services is an important task, and the answer will most likely be a resounding "yes!" Particularly in economically troubled times, librarians are increasingly called upon to promote their services and defend their library's worth. Since few academic libraries have in-house marketing…

  2. School Libraries and Innovation

    Science.gov (United States)

    McGrath, Kevin G.

    2015-01-01

    School library programs have measured success by improved test scores. But how do next-generation school libraries demonstrate success as they strive to be centers of innovation and creativity? These libraries offer solutions for school leaders who struggle to restructure existing systems built around traditional silos of learning (subjects and…

  3. National Strategies for Public Library Development

    DEFF Research Database (Denmark)

    Kann-Christensen, Nanna

    2010-01-01

    by The Danish Agency for Libraries and Media, and The Swedish Arts Council, who both administer development grants to public libraries. The paper identifies both differences and similarities in both the means to (the political agendas) and the objectives of governmental influence in the libraries.......The economic rationale of New Public Management (NPM) is used in both Sweden and Denmark in order to employ the national cultural policies in local development projects. The paper discusses two different organizational models that are used in order for the national level to be able to exercise...... policies on the local level are discussed. according to the national goals and cultural policies for libraries. This is done in order to point towards a possible relationship between the political means and ends regarding library development. The two models to be discussed are the systems practiced...

  4. Data Content Protection for Virtual Libraries Heritage

    Directory of Open Access Journals (Sweden)

    Mihai DOINEA

    2016-01-01

    Full Text Available This paper presents aspects of digital content protection in virtual library systems. The legislation aspects are presented to better emphasize the need of new security mechanisms. Integrated library systems architecture is presented with focus on their main purpose, manipulating and rendering digital content to end-users. The cultural heritage stored in such systems is an important asset that needs to be protected against malicious manipulation. The characteristics of a smart virtual library, supported by an integrated library system, are analyzed and a security model is proposed for implementation, based on its particularities. The model aims to be an interface between the interactions of anonymous users with the Online Public Access Catalog of a virtual library that assures the protection of digital content. Conclusions are drawn to better support the idea of cultural persistence by the use of Information Systems.

  5. The four spaces of the public library

    DEFF Research Database (Denmark)

    Jochumsen, Henrik; Skot-Hansen, Dorte; Rasmussen, Casper Hvenegaard

    2016-01-01

    During the last 10–15 years the societal context and thereby the library's societal legitimacy has changed in a crucial manner. The development of the Internet and tendencies toward globalisation, detraditionalisation and cultural liberation has challenged the library. Therefore the role...... of the physical library has changed from a more or less passive collection of books and other media to an active space for experience and inspiration and a local meeting point. One could speak of a transformation from ‘collection to connection’ or even from ‘collection to creation’ rather than the predicted...... transformation from ‘bricks to clicks’. In this article we will present a model for the future public library that includes some overriding goals as well as outlining four spaces in the public library which support these goals. We propose the model as both a framework for the discussion of the values...

  6. Proceedings of the NETL Workshop on Fuel Cell Modeling

    Energy Technology Data Exchange (ETDEWEB)

    Randall S. Gemmen; J. R. Selman

    2000-04-18

    This workshop was the first U.S. DOE sponsored meeting devoted to fuel cell modeling. The workshop was attended by over 45 people from industry, universities, and the government. The goals of the meeting were to assess the status of fuel cell modeling, and determine how new developments in fuel cell modeling can improve cell design, stack design, and power system design. The primary focus was on cell and stack modeling. Following a review of DOE/NETL fuel cell related programs and activities, Professor Robert Selman (Illinois Institute of Technology) kicked off the technical portion of the workshop by presenting an overview of fuel cell phenomena and the status of fuel cell modeling. This overview provided the necessary background for establishing a common framework for discussing fuel cell modeling. A distinction was made between micro modeling, electrode modeling, cell modeling, stack modeling, and system modeling. It was proposed that all modeling levels be supported for further development. In addition, due to significant advances being made outside the U.S., it was proposed that dialog/exchange with other international researchers be established. Following the Overview Session, eight leading researchers in modeling gave individual presentations. These presentations provided additional information on the status and present direction of model developments. All these presentations can be found in Attachment A. Before the workshop, a survey was sent out requesting comments from the attendees. Results from this survey can be found in Attachment B. This survey was then used as initial talking points at the individual breakout sessions on the afternoon of the workshop. Breakouts were organized by microfundamental modeling, cell modeling, stack modeling, and systems modeling.

  7. Computational cell model based on autonomous cell movement regulated by cell-cell signalling successfully recapitulates the "inside and outside" pattern of cell sorting

    Directory of Open Access Journals (Sweden)

    Ajioka Itsuki

    2007-09-01

    Full Text Available Abstract Background Development of multicellular organisms proceeds from a single fertilized egg as the combined effect of countless numbers of cellular interactions among highly dynamic cells. Since at least a reminiscent pattern of morphogenesis can be recapitulated in a reproducible manner in reaggregation cultures of dissociated embryonic cells, which is known as cell sorting, the cells themselves must possess some autonomous cell behaviors that assure specific and reproducible self-organization. Understanding of this self-organized dynamics of heterogeneous cell population seems to require some novel approaches so that the approaches bridge a gap between molecular events and morphogenesis in developmental and cell biology. A conceptual cell model in a computer may answer that purpose. We constructed a dynamical cell model based on autonomous cell behaviors, including cell shape, growth, division, adhesion, transformation, and motility as well as cell-cell signaling. The model gives some insights about what cellular behaviors make an appropriate global pattern of the cell population. Results We applied the model to "inside and outside" pattern of cell-sorting, in which two different embryonic cell types within a randomly mixed aggregate are sorted so that one cell type tends to gather in the central region of the aggregate and the other cell type surrounds the first cell type. Our model can modify the above cell behaviors by varying parameters related to them. We explored various parameter sets with which the "inside and outside" pattern could be achieved. The simulation results suggested that direction of cell movement responding to its neighborhood and the cell's mobility are important for this specific rearrangement. Conclusion We constructed an in silico cell model that mimics autonomous cell behaviors and applied it to cell sorting, which is a simple and appropriate phenomenon exhibiting self-organization of cell population. The model

  8. Withdrawn library materials in the period 2005-2010 through the prism of the national library

    Directory of Open Access Journals (Sweden)

    Tereza Poličnik-Čermelj

    2011-01-01

    Full Text Available Purpose: In Slovenia, there is no national repository library for the long-term retention of withdrawn library materials. Therefore, the National and University Library (NUKcoordinates withdrawals in Slovenian libraries in order to preserve the national cultural heritage. The author highlights collaborative activities of NUK and other libraries to ensure preservation and retention of withdrawn printed materials in terms of professional legislation and guidelines. According to them NUK is authorised to select withdrawn items to be included in the "Slovenica" collection.Methodology/approach: The paper deals with withdrawal statistics of Slovenian libraries during the period 2005-2010. The data were collected by the Library System Development Centre at NUK in correlation with withdrawal lists sent to NUK by the libraries.Results: The results show that well-preserved but outdated materials are deselected by less than a half of public libraries, by 10 % of higher-education libraries, by a little bit more than 5 % of special libraries and only by 2 % of school libraries. The protocol for data checking, sending the materials to NUK, handling and selection criteria are explained. The advantages and disadvantages of including the withdrawn items into the NUK collection and the disposal of inappropriately selected materials are described.The results of acquiring the last copies of "Slovenica" from the withdrawn materials are more than satisfactory for NUK.Research limitation: As there are no similar models of acquisition among foreign national libraries, the study is limited to Slovenian library practice.Originality/practical implications: The paper also indicates the direction of future development.

  9. Construction of cDNA library of the treated Changliver cell and quality analysis%常氏肝癌细胞cDNA文库的构建及质量分析

    Institute of Scientific and Technical Information of China (English)

    林俊堂; 王聪睿; 张会勇; 李玉昌; 徐存拴

    2004-01-01

    目的利用RNA转录5′末端转换机制(SMART)构建适合免疫筛选的经去分化培养基处理的常氏肝癌细胞cDNA文库.方法通过反转录PCR和长距离PCR获得常氏肝癌细胞的全长cDNA,然后利用SMART cDNA文库构建试剂盒建立经去分化培养基处理的常氏肝癌细胞cDNA文库.结果通过测定,高质量的包含常氏肝癌细胞全长cDNA的cDNA文库得到建立,扩增cDNA文库的滴度高达4.5 × 1010 pfu*ml-1,重组子内平均插入外源基因片段长度在200 bp到4000 bp之间,约1500 bp左右,并且此文库适合免疫筛选.结论结果显示所构建的经去分化培养基处理的常氏肝癌细胞cDNA文库具有很高的质量, 为进一步研究常氏肝癌细胞和筛选相关基因获得cDNA全长奠定了坚实的基础.%Objective To construct cDNA library of the treated Changliver cell by switching mechanism at 5′ end of RNA transcript (SMART) technique and analyze its quality.Methods cDNA of Changliver cell was aquired with reverse transcription polymerase chain reaction (RT-PCR) and long-distance PCR (LD-PCR),then the cDNA library was constructed with SMART cDNA library construction kit.Results Through testing,the high quality cDNA library containing full length cDNA of Changliver cell had been constructed.The titer of the amplified cDNA library was 4.5 × 1010 pfu*ml-1 and the average exogenous inserts of the recombinants was 1.5 kb.Conclusion These results suggest that the Changliver cell cDNA library has a high quality and lays a solid foundation for researching on Changliver cell and screening

  10. System-level modeling and simulation of the cell culture microfluidic biochip ProCell

    DEFF Research Database (Denmark)

    Minhass, Wajid Hassan; Pop, Paul; Madsen, Jan

    2010-01-01

    -defined micro-channels using valves and pumps. We present an approach to the system-level modeling and simulation of a cell culture microfluidic biochip called ProCell, Programmable Cell Culture Chip. ProCell contains a cell culture chamber, which is envisioned to run 256 simultaneous experiments (viewed...

  11. Theoretical model of a photoelectrochemical solar cell

    Energy Technology Data Exchange (ETDEWEB)

    Chandra, S.; Singh, S.L.; Khare, N.

    1986-03-01

    A Schottky barrier theoretical model for explaining the J-V characteristic of a photoelectrochemical solar cell (PESC) has been developed considering the effect of dark current, space-charge recombination, surface states, and detailed charge transfer kinetics at the interface. Both isoenergetic charge transfer and inelastic charge transfers (via surface states) at the interface have been considered and their relative importance are discussed. The theory has been applied to explain the (a) J-V characteristic for n-GaAs/SeS , SeS 2 junction and (b) Fermi-level pinning observed in GaAs PESC. The inelastic charge transfer via surfaces states has been shown to play an important role in deciding these characteristics.

  12. Usage Analysis for the Identification of Research Trends in Digital Libraries; Keepers of the Crumbling Culture: What Digital Preservation Can Learn from Library History; Patterns of Journal Use by Scientists through Three Evolutionary Phases; Developing a Content Management System-Based Web Site; Exploring Charging Models for Digital Cultural Heritage in Europe; Visions: The Academic Library in 2012.

    Science.gov (United States)

    Bollen, Johan; Vemulapalli, Soma Sekara; Xu, Weining; Luce, Rick; Marcum, Deanna; Friedlander, Amy; Tenopir, Carol; Grayson, Matt; Zhang, Yan; Ebuen, Mercy; King, Donald W.; Boyce, Peter; Rogers, Clare; Kirriemuir, John; Tanner, Simon; Deegan, Marilyn; Marcum, James W.

    2003-01-01

    Includes six articles that discuss use analysis and research trends in digital libraries; library history and digital preservation; journal use by scientists; a content management system-based Web site for higher education in the United Kingdom; cost studies for transitioning to digitized collections in European cultural institutions; and the…

  13. Content and Workflow Management for Library Websites: Case Studies

    Science.gov (United States)

    Yu, Holly, Ed.

    2005-01-01

    Using database-driven web pages or web content management (WCM) systems to manage increasingly diverse web content and to streamline workflows is a commonly practiced solution recognized in libraries today. However, limited library web content management models and funding constraints prevent many libraries from purchasing commercially available…

  14. Five Aspects of Current Trends in German Library Science

    Science.gov (United States)

    Steierwald, Ulrike

    2006-01-01

    The specialisation Library Science at the Hochschule Darmstadt/University of Applied Science Darmstadt is the newest academic program in Germany for the higher education of librarians. Five current trends in library science in Germany reflect the new "Darmstadt Model": (1) The delimitation of a specific professional field "library" is obsolete, so…

  15. Web 2.0 Strategy in Libraries and Information Services

    Science.gov (United States)

    Byrne, Alex

    2008-01-01

    Web 2.0 challenges libraries to change from their predominantly centralised service models with integrated library management systems at the hub. Implementation of Web 2.0 technologies and the accompanying attitudinal shifts will demand reconceptualisation of the nature of library and information service around a dynamic, ever changing, networked,…

  16. A Framework for Studying Organizational Innovation in Research Libraries

    Science.gov (United States)

    Jantz, Ronald C.

    2012-01-01

    The objective of this paper is two-fold: to propose a theoretical framework and model for studying organizational innovation in research libraries and to set forth propositions that can provide directions for future empirical studies of innovation in research libraries. Research libraries can be considered members of a class of organizations…

  17. Modeling keratinocyte wound healing dynamics: Cell-cell adhesion promotes sustained collective migration.

    Science.gov (United States)

    Nardini, John T; Chapnick, Douglas A; Liu, Xuedong; Bortz, David M

    2016-07-07

    The in vitro migration of keratinocyte cell sheets displays behavioral and biochemical similarities to the in vivo wound healing response of keratinocytes in animal model systems. In both cases, ligand-dependent Epidermal Growth Factor Receptor (EGFR) activation is sufficient to elicit collective cell migration into the wound. Previous mathematical modeling studies of in vitro wound healing assays assume that physical connections between cells have a hindering effect on cell migration, but biological literature suggests a more complicated story. By combining mathematical modeling and experimental observations of collectively migrating sheets of keratinocytes, we investigate the role of cell-cell adhesion during in vitro keratinocyte wound healing assays. We develop and compare two nonlinear diffusion models of the wound healing process in which cell-cell adhesion either hinders or promotes migration. Both models can accurately fit the leading edge propagation of cell sheets during wound healing when using a time-dependent rate of cell-cell adhesion strength. The model that assumes a positive role of cell-cell adhesion on migration, however, is robust to changes in the leading edge definition and yields a qualitatively accurate density profile. Using RNAi for the critical adherens junction protein, α-catenin, we demonstrate that cell sheets with wild type cell-cell adhesion expression maintain migration into the wound longer than cell sheets with decreased cell-cell adhesion expression, which fails to exhibit collective migration. Our modeling and experimental data thus suggest that cell-cell adhesion promotes sustained migration as cells pull neighboring cells into the wound during wound healing.

  18. A library of extended high-temperature expansions of basic observables for the spin S Ising models on two- and three-dimensional lattices

    CERN Document Server

    Butera, P

    2002-01-01

    We present an on-line library of unprecedented extension for high-temperature expansions of basic observables in the Ising models of general spin S, with nearest-neighbor interactions. We have tabulated through order beta^{25} the series for the nearest-neighbor correlation function, the susceptibility and the second correlation moment in two dimensions on the square lattice, and, in three dimensions, on the simple-cubic and the body-centered cubic lattices. The expansion of the second field derivative of the susceptibility is also tabulated through beta^{23} for the same lattices. We have thus added several terms (from four up to thirteen) to the series already published for spin S=1/2,1,3/2,2,5/2,3,7/2,4,5,infinity.

  19. University library information service innovation model technical analysis%图书馆信息服务创新模式技术分析

    Institute of Scientific and Technical Information of China (English)

    方锋

    2014-01-01

    伴随着计算机技术、网络技术、通讯技术、信息数字化技术和智能手机的不断发展和创新,高校图书馆信息服务模式也应跟随时代的发展进行创新服务,从技术层面分析了信息服务模式中需要的技术创新手段。%Along with computer technology, network technology, communication technology, information technology and the continuous development of smart phones and digital innovation, colleges and universities library information service model innovation service should also follow the development of the Times, from the technical level, the author analyzed needs in the information service mode of technology innovation means.

  20. Validation of noise models for single-cell transcriptomics

    NARCIS (Netherlands)

    Grün, Dominic; Kester, Lennart; van Oudenaarden, Alexander

    2014-01-01

    Single-cell transcriptomics has recently emerged as a powerful technology to explore gene expression heterogeneity among single cells. Here we identify two major sources of technical variability: sampling noise and global cell-to-cell variation in sequencing efficiency. We propose noise models to co

  1. Epigenetic Library Screen Identifies Abexinostat as Novel Regulator of Adipocytic and Osteoblastic Differentiation of Human Skeletal (Mesenchymal) Stem Cells

    DEFF Research Database (Denmark)

    Ali, D.; Hamam, R.; Alfayez, M.;

    2016-01-01

    abexinostat, which promoted adipocytic and osteoblastic differentiation of hMSCs. Using gene expression microarrays, chromatin immunoprecipitation for H3K9Ac combined with high-throughput DNA sequencing (ChIP-seq), and bioinformatics, we identified several key genes involved in regulating stem cell...... proliferation and differentiation that were targeted by abexinostat. Concordantly, ChIP-quantitative polymerase chain reaction revealed marked increase in H3K9Ac epigenetic mark on the promoter region of AdipoQ, FABP4, PPARγ, KLF15, CEBPA, SP7, and ALPL in abexinostat-treated hMSCs. Pharmacological inhibition...

  2. A Study of Ontology Model of Resource Organization and Management of Library Service%图书馆服务性资源组织与管理的本体模型研究

    Institute of Scientific and Technical Information of China (English)

    张晗; 孙翌; 郑巧英

    2016-01-01

    文章通过调研国内外高校图书馆及相关研究,对图书馆服务性资源进行定义与分类,在此基础上,利用本体技术设计图书馆服务性资源一体化组织与管理模型:以服务为主线整合并关联馆藏服务资源、人力资源、场所资源等服务性资源,对图书馆服务本体进行建模,给出其类、属性和关系的定义。%With an investigation on domestic and overseas university libraries and related researches, the definition and classification of library service resource are discussed. On that basis, an integrative resource organization and management model of library service is designed with ontology technology:organically integrating and associating all library service resources, such as collection, orkforce and places;modeling library service ontology by giving definitions to its classes,properties and relationship.

  3. Process modeling of fuel cell vehicle power system

    Institute of Scientific and Technical Information of China (English)

    CHEN LiMing; LIN ZhaoJia; MA ZiFeng

    2009-01-01

    Constructed here is a mathematic model of PEM Fuel Cell Vehicle Power System which is composed of fuel supply model, fuel cell stack model and water-heat management model. The model was developed by Matiab/Simulink to evaluate how the major operating variables affect the output performances. Itshows that the constructed model can represent characteristics of the power system closely by comparing modeling results with experimental data, and it can be used in the study and design of fuel cell vehicle power system.

  4. Teleporting the library?

    DEFF Research Database (Denmark)

    Heilesen, Simon

    2009-01-01

    In 2007, six Danish public libraries established a virtual library, Info Island DK, in Second Life. This article discusses the library project in terms of design. The design processes include the planning and implementation of the virtual library structure and its equipment, as well...... as the organizing and carrying out of activities in the virtual setting. It will be argued that, to a large extent, conventions have determined design and use of the virtual library, and also that design has had an impact on the attitudes and understanding of the participants....

  5. Library/vendor relationships

    CERN Document Server

    Brooks, Sam

    2014-01-01

    A view of the mutual dependence between libraries and vendorsAs technology advances, libraries are forced to reach beyond their own resources to find effective ways to maintain accuracy and superior service levels. Vendors provide databases and integrated library systems that perform those functions for profit. Library/Vendor Relationships examines the increasing cooperation in which libraries find they must participate in, and vice versa, with the vendors that provide system infrastructure and software. Expert contributors provide insights from all sides of this unique collaboration, offering

  6. Rotating cell culture systems for human cell culture: human trophoblast cells as a model.

    Science.gov (United States)

    Zwezdaryk, Kevin J; Warner, Jessica A; Machado, Heather L; Morris, Cindy A; Höner zu Bentrup, Kerstin

    2012-01-18

    The field of human trophoblast research aids in understanding the complex environment established during placentation. Due to the nature of these studies, human in vivo experimentation is impossible. A combination of primary cultures, explant cultures and trophoblast cell lines support our understanding of invasion of the uterine wall and remodeling of uterine spiral arteries by extravillous trophoblast cells (EVTs), which is required for successful establishment of pregnancy. Despite the wealth of knowledge gleaned from such models, it is accepted that in vitro cell culture models using EVT-like cell lines display altered cellular properties when compared to their in vivo counterparts. Cells cultured in the rotating cell culture system (RCCS) display morphological, phenotypic, and functional properties of EVT-like cell lines that more closely mimic differentiating in utero EVTs, with increased expression of genes mediating invasion (e.g. matrix metalloproteinases (MMPs)) and trophoblast differentiation. The Saint Georges Hospital Placental cell Line-4 (SGHPL-4) (kindly donated by Dr. Guy Whitley and Dr. Judith Cartwright) is an EVT-like cell line that was used for testing in the RCCS. The design of the RCCS culture vessel is based on the principle that organs and tissues function in a three-dimensional (3-D) environment. Due to the dynamic culture conditions in the vessel, including conditions of physiologically relevant shear, cells grown in three dimensions form aggregates based on natural cellular affinities and differentiate into organotypic tissue-like assemblies. The maintenance of a fluid orbit provides a low-shear, low-turbulence environment similar to conditions found in vivo. Sedimentation of the cultured cells is countered by adjusting the rotation speed of the RCCS to ensure a constant free-fall of cells. Gas exchange occurs through a permeable hydrophobic membrane located on the back of the bioreactor. Like their parental tissue in vivo, RCCS

  7. One library to make them all: streamlining the creation of yeast libraries via a SWAp-Tag strategy.

    Science.gov (United States)

    Yofe, Ido; Weill, Uri; Meurer, Matthias; Chuartzman, Silvia; Zalckvar, Einat; Goldman, Omer; Ben-Dor, Shifra; Schütze, Conny; Wiedemann, Nils; Knop, Michael; Khmelinskii, Anton; Schuldiner, Maya

    2016-04-01

    The yeast Saccharomyces cerevisiae is ideal for systematic studies relying on collections of modified strains (libraries). Despite the significance of yeast libraries and the immense variety of available tags and regulatory elements, only a few such libraries exist, as their construction is extremely expensive and laborious. To overcome these limitations, we developed a SWAp-Tag (SWAT) method that enables one parental library to be modified easily and efficiently to give rise to an endless variety of libraries of choice. To showcase the versatility of the SWAT approach, we constructed and investigated a library of ∼1,800 strains carrying SWAT-GFP modules at the amino termini of endomembrane proteins and then used it to create two new libraries (mCherry and seamless GFP). Our work demonstrates how the SWAT method allows fast and effortless creation of yeast libraries, opening the door to new ways of systematically studying cell biology.

  8. E-book Reader Devices and Libraries

    Directory of Open Access Journals (Sweden)

    Pažur, I.

    2011-03-01

    Full Text Available Most library studies thematically related to electronic books don't consider readers of electronic books. Only in recent years librarians conduct studies in which they want to find out readers' opinions about the possibilities, advantages and disadvantages of reading using e-readers, as well as their possible application in the libraries.User studies of e-readers have shown that their opinion is generally positive, but great attachment to traditional books is still present, e-readers are still seen only as an additional tool for reading. Sony with its e-reader (the latest Reader model Daily and Reader Store online bookstore (http://ebookstore.sony.com/is the only one who cooperate with libraries and has made lending electronic books possible. Cooperation was launched in 2009th,and the New York Public Library was the first library that offered such a service.Cooperation between Sony and libraries, indicates clearly what the near future could be if other online booksellers / publishers begin to follow the model of lending e-books through the libraries over the network. However it is possible that a large online bookstores / publishers consider that the further price reduction of e-readers and electronic books will constantly increase their sales, and in that case lending e-books will be unnecessary.Are the libraries ready for this scenario?

  9. Couplerlib: a metadata-driven library for the integration of multiple models of higher and lower trophic level marine systems with inexact functional group matching

    Science.gov (United States)

    Beecham, Jonathan; Bruggeman, Jorn; Aldridge, John; Mackinson, Steven

    2016-03-01

    End-to-end modelling is a rapidly developing strategy for modelling in marine systems science and management. However, problems remain in the area of data matching and sub-model compatibility. A mechanism and novel interfacing system (Couplerlib) is presented whereby a physical-biogeochemical model (General Ocean Turbulence Model-European Regional Seas Ecosystem Model, GOTM-ERSEM) that predicts dynamics of the lower trophic level (LTL) organisms in marine ecosystems is coupled to a dynamic ecosystem model (Ecosim), which predicts food-web interactions among higher trophic level (HTL) organisms. Coupling is achieved by means of a bespoke interface, which handles the system incompatibilities between the models and a more generic Couplerlib library, which uses metadata descriptions in extensible mark-up language (XML) to marshal data between groups, paying attention to functional group mappings and compatibility of units between models. In addition, within Couplerlib, models can be coupled across networks by means of socket mechanisms. As a demonstration of this approach, a food-web model (Ecopath with Ecosim, EwE) and a physical-biogeochemical model (GOTM-ERSEM) representing the North Sea ecosystem were joined with Couplerlib. The output from GOTM-ERSEM varies between years, depending on oceanographic and meteorological conditions. Although inter-annual variability was clearly present, there was always the tendency for an annual cycle consisting of a peak of diatoms in spring, followed by (less nutritious) flagellates and dinoflagellates through the summer, resulting in an early summer peak in the mesozooplankton biomass. Pelagic productivity, predicted by the LTL model, was highly seasonal with little winter food for the higher trophic levels. The Ecosim model was originally based on the assumption of constant annual inputs of energy and, consequently, when coupled, pelagic species suffered population losses over the winter months. By contrast, benthic populations

  10. The Memory Library

    DEFF Research Database (Denmark)

    Olesen-Bagneux, Ole

    2014-01-01

    For millennia the famous library in Hellenistic Alexandria has been praised as an epicenter of enlightenment and wisdom. And yet, a question still seems unanswered: how was its literature classified and retrieved? It is a subject that has been given surprisingly little attention by Library......- and Information Science – indeed, by scholarship in general. Furthermore, a certain way of thinking has influenced the few answers that have so far been attempted. It is as if the scholars of our era have tried to identify the modern, physical library in the Hellenistic library in Alexandria. But such an approach...... is biased in a basic way: It simply does not consider the impact of the cultural and intellectual context of the library. This article differs fundamentally, and rejects that the library was like modern ones. Accordingly, an entirely new way of understanding how the library actually worked, in terms...

  11. The participatory public library

    DEFF Research Database (Denmark)

    Rasmussen, Casper Hvenegaard

    2016-01-01

    Purpose From collection to connection has been a buzzword in the library world for more than a decade. This catchy phrase indicates that users are seen not only as borrowers, but as active participants. The aim of this paper is to investigate and analyse three questions in relation to user...... participation in public libraries in a Nordic perspective. How can participation in public libraries be characterised? Why should libraries deal with user participation? What kinds of different user participation can be identified in public libraries? Design/methodology/approach The paper uses a selection...... of theoretical approaches and practical examples to obtain a varied understanding of user participation in public libraries. Research fields outside library and information science have developed a wide range of theoretical approaches on user participation. Examples from cultural policy, museum studies...

  12. The participatory public library

    DEFF Research Database (Denmark)

    Rasmussen, Casper Hvenegaard

    2016-01-01

    of theoretical approaches and practical examples to obtain a varied understanding of user participation in public libraries. Research fields outside library and information science have developed a wide range of theoretical approaches on user participation. Examples from cultural policy, museum studies......Purpose From collection to connection has been a buzzword in the library world for more than a decade. This catchy phrase indicates that users are seen not only as borrowers, but as active participants. The aim of this paper is to investigate and analyse three questions in relation to user...... participation in public libraries in a Nordic perspective. How can participation in public libraries be characterised? Why should libraries deal with user participation? What kinds of different user participation can be identified in public libraries? Design/methodology/approach The paper uses a selection...

  13. Cell sources for in vitro human liver cell culture models.

    Science.gov (United States)

    Zeilinger, Katrin; Freyer, Nora; Damm, Georg; Seehofer, Daniel; Knöspel, Fanny

    2016-09-01

    In vitro liver cell culture models are gaining increasing importance in pharmacological and toxicological research. The source of cells used is critical for the relevance and the predictive value of such models. Primary human hepatocytes (PHH) are currently considered to be the gold standard for hepatic in vitro culture models, since they directly reflect the specific metabolism and functionality of the human liver; however, the scarcity and difficult logistics of PHH have driven researchers to explore alternative cell sources, including liver cell lines and pluripotent stem cells. Liver cell lines generated from hepatomas or by genetic manipulation are widely used due to their good availability, but they are generally altered in certain metabolic functions. For the past few years, adult and pluripotent stem cells have been attracting increasing attention, due their ability to proliferate and to differentiate into hepatocyte-like cells in vitro However, controlling the differentiation of these cells is still a challenge. This review gives an overview of the major human cell sources under investigation for in vitro liver cell culture models, including primary human liver cells, liver cell lines, and stem cells. The promises and challenges of different cell types are discussed with a focus on the complex 2D and 3D culture approaches under investigation for improving liver cell functionality in vitro Finally, the specific application options of individual cell sources in pharmacological research or disease modeling are described.

  14. Assessing Library Automation and Virtual Library Development in Four Academic Libraries in Oyo, Oyo State, Nigeria

    Science.gov (United States)

    Gbadamosi, Belau Olatunde

    2011-01-01

    The paper examines the level of library automation and virtual library development in four academic libraries. A validated questionnaire was used to capture the responses from academic librarians of the libraries under study. The paper discovers that none of the four academic libraries is fully automated. The libraries make use of librarians with…

  15. A minimal model for spontaneous cell polarization and edge activity in oscillating, rotating and migrating cells

    CERN Document Server

    Raynaud, Franck; Gabella, Chiara; Bornert, Alicia; Sbalzarini, Ivo F; Meister, Jean-Jacques; Verkhovsky, Alexander B

    2016-01-01

    How the cells break symmetry and organize their edge activity to move directionally is a fun- damental question in cell biology. Physical models of cell motility commonly rely on gradients of regulatory factors and/or feedback from the motion itself to describe polarization of edge activity. Theses approaches, however, fail to explain cell behavior prior to the onset of polarization. Our analysis using the model system of polarizing and moving fish epidermal keratocytes suggests a novel and simple principle of self-organization of cell activity in which local cell-edge dynamics depends on the distance from the cell center, but not on the orientation with respect to the front-back axis. We validate this principle with a stochastic model that faithfully reproduces a range of cell-migration behaviors. Our findings indicate that spontaneous polarization, persistent motion, and cell shape are emergent properties of the local cell-edge dynamics controlled by the distance from the cell center.

  16. Flight Software Math Library

    Science.gov (United States)

    McComas, David

    2013-01-01

    The flight software (FSW) math library is a collection of reusable math components that provides typical math utilities required by spacecraft flight software. These utilities are intended to increase flight software quality reusability and maintainability by providing a set of consistent, well-documented, and tested math utilities. This library only has dependencies on ANSI C, so it is easily ported. Prior to this library, each mission typically created its own math utilities using ideas/code from previous missions. Part of the reason for this is that math libraries can be written with different strategies in areas like error handling, parameters orders, naming conventions, etc. Changing the utilities for each mission introduces risks and costs. The obvious risks and costs are that the utilities must be coded and revalidated. The hidden risks and costs arise in miscommunication between engineers. These utilities must be understood by both the flight software engineers and other subsystem engineers (primarily guidance navigation and control). The FSW math library is part of a larger goal to produce a library of reusable Guidance Navigation and Control (GN&C) FSW components. A GN&C FSW library cannot be created unless a standardized math basis is created. This library solves the standardization problem by defining a common feature set and establishing policies for the library s design. This allows the libraries to be maintained with the same strategy used in its initial development, which supports a library of reusable GN&C FSW components. The FSW math library is written for an embedded software environment in C. This places restrictions on the language features that can be used by the library. Another advantage of the FSW math library is that it can be used in the FSW as well as other environments like the GN&C analyst s simulators. This helps communication between the teams because they can use the same utilities with the same feature set and syntax.

  17. Dynamic modeling of thermal systems using a semi-empirical approach and the ThermoCycle Modelica Library

    OpenAIRE

    Altés Buch, Queralt; Dickes, Rémi; Desideri, Adriano; Lemort, Vincent; Quoilin, Sylvain

    2015-01-01

    This paper proposes an innovative approach for the dynamic modeling of heat exchangers without phase transitions. The proposed thermo-flow model is an alternative to the traditional 1D finite-volumes approach and relies on a lumped thermal mass approach to model transient responses. The heat transfer is modeled by the well-known Logarithmic Mean Temperature Difference approach, which is modified to ensure robustness during all possible transient conditions. The lumped parameter models are val...

  18. Hijazi Architectural Object Library (haol)

    Science.gov (United States)

    Baik, A.; Boehm, J.

    2017-02-01

    As with many historical buildings around the world, building façades are of special interest; moreover, the details of such windows, stonework, and ornaments give each historic building its individual character. Each object of these buildings must be classified in an architectural object library. Recently, a number of researches have been focusing on this topic in Europe and Canada. From this standpoint, the Hijazi Architectural Objects Library (HAOL) has reproduced Hijazi elements as 3D computer models, which are modelled using a Revit Family (RFA). The HAOL will be dependent on the image survey and point cloud data. The Hijazi Object such as Roshan and Mashrabiyah, become as vocabulary of many Islamic cities in the Hijazi region such as Jeddah in Saudi Arabia, and even for a number of Islamic historic cities such as Istanbul and Cairo. These architectural vocabularies are the main cause of the beauty of these heritage. However, there is a big gap in both the Islamic architectural library and the Hijazi architectural library to provide these unique elements. Besides, both Islamic and Hijazi architecture contains a huge amount of information which has not yet been digitally classified according to period and styles. Due to this issue, this paper will be focusing on developing of Heritage BIM (HBIM) standards and the HAOL library to reduce the cost and the delivering time for heritage and new projects that involve in Hijazi architectural styles. Through this paper, the fundamentals of Hijazi architecture informatics will be provided via developing framework for HBIM models and standards. This framework will provide schema and critical information, for example, classifying the different shapes, models, and forms of structure, construction, and ornamentation of Hijazi architecture in order to digitalize parametric building identity.

  19. Periodic migration in a physical model of cells on micropatterns

    Science.gov (United States)

    Camley, Brian A.; Zhao, Yanxiang; Li, Bo; Levine, Herbert; Rappel, Wouter-Jan

    2013-01-01

    We extend a model for the morphology and dynamics of a crawling eukaryotic cell to describe cells on micropatterned substrates. This model couples cell morphology, adhesion, and cytoskeletal flow in response to active stresses induced by actin and myosin. We propose that protrusive stresses are only generated where the cell adheres, leading to the cell's effective confinement to the pattern. Consistent with experimental results, simulated cells exhibit a broad range of behaviors, including steady motion, turning, bipedal motion, and periodic migration, in which the cell crawls persistently in one direction before reversing periodically. We show that periodic motion emerges naturally from the coupling of cell polarization to cell shape by reducing the model to a simplified one-dimensional form that can be understood analytically. PMID:24160631

  20. A transient fuel cell model to simulate HTPEM fuel cell impedance spectra

    DEFF Research Database (Denmark)

    Vang, Jakob Rabjerg; Andreasen, Søren Juhl; Kær, Søren Knudsen

    2011-01-01

    This paper presents a spatially resolved transient fuel cell model applied to the simulation of high temperature PEM fuel cell impedance spectra. The model is developed using a 2D finite volume method approach. The model is resolved along the channel and across the membrane. The model considers...

  1. In Vitro Sensitivity Profiling Of Neuroblastoma Cells Against A Comprehensive Small Molecule Kinase Inhibitor Library To Identify Agents For Future Therapeutic Studies.

    Science.gov (United States)

    Singh, Anjali; Meier-Stephenson, Vanessa; Jayanthan, Aarthi; Narendran, Aru

    2016-11-22

    Solid tumors represent one of the most widespread causes of death in children across the world. Neuroblastoma (NB) constitutes about 8% of all childhood tumors, yet accounts for more than 15% of death, with an unacceptable overall survival rate. Despite the current multimodal therapeutic approaches involving surgery, radiation, chemotherapy with myeloablative therapy and hematopoietic stem cell rescue, there is growing realization of the limitations of conventional agents to improve the outcome in high risk metastatic disease. Hence, efforts have intensified to identify new targets and novel therapeutic approaches to improve cure rates in these children. Among the significant number of new therapeutics that are being evaluated for cancer each year, the agents that have been developed for common adult malignancies have the added advantage of having usable toxicity data already available for consideration. To identify potential therapeutic targets, we screened a small molecule library of 151 small kinase inhibitors against NB cell lines. Based on our initial screening data, we further examined the potential of Bcr-Abl targeting small molecule inhibitors to affect the growth and survival of NB cells. Our findings confirm the diversity in activity among the currently available Bcr-Abl inhibitors, possibly reflecting the molecular heterogeneity and off-target activity in each combination. In depth analyses of ponatinib, an orally bioavailable multi-target kinase inhibitor and an effective agent in the treatment of refractory Philadelphia chromosome (Ph) positive leukemia, show growth inhibition at sub-micromolar concentrations. In addition, we also identified the potential of this agent to interfere with insulin-like growth factor-1 receptor (IGF-1R) signaling pathways and Src activity. Ponatinib also induced apoptosis, indicated by caspase-9 and PARP cleavage. Furthermore, at sub-lethal conditions ponatinib significantly inhibited the ability of these cells to migrate

  2. Identification of two linear B-cell epitopes from West Nile virus NS1 by screening a phage-displayed random peptide library

    Directory of Open Access Journals (Sweden)

    Qin Yong-Li

    2011-07-01

    Full Text Available Abstract Background The West Nile virus (WNV nonstructural protein 1 (NS1 is an important antigenic protein that elicits protective antibody responses in animals and can be used for the serological diagnosis of WNV infection. Although previous work has demonstrated the vital role of WNV NS1-specific antibody responses, the specific epitopes in the NS1 have not been identified. Results The present study describes the identification of two linear B-cell epitopes in WNV NS1 through screening a phage-displayed random 12-mer peptide library with two monoclonal antibodies (mAbs 3C7 and 4D1 that directed against the NS1. The mAbs 3C7 and 4D1 recognized phages displaying peptides with the consensus motifs LTATTEK and VVDGPETKEC, respectively. Exact sequences of both motifs were found in the NS1 (895LTATTEK901 and 925VVDGPETKEC934. Further identification of the displayed B cell epitopes were conducted using a set of truncated peptides expressed as MBP fusion proteins. The data indicated that 896TATTEK901 and925VVDGPETKEC934 are minimal determinants of the linear B cell epitopes recognized by the mAbs 3C7 and 4D1, respectively. Antibodies present in the serum of WNV-positive horses recognized the minimal linear epitopes in Western blot analysis, indicating that the two peptides are antigenic in horses during infection. Furthermore, we found that the epitope recognized by 3C7 is conserved only among WNV strains, whereas the epitope recognized by 4D1 is a common motif shared among WNV and other members of Japanese encephalitis virus (JEV serocomplex. Conclusions We identified TATTEK and VVDGPETKEC as NS1-specific linear B-cell epitopes recognized by the mAbs 3C7 and 4D1, respectively. The knowledge and reagents generated in this study may have potential applications in differential diagnosis and the development of epitope-based marker vaccines against WNV and other viruses of JEV serocomplex.

  3. A new level set model for cell image segmentation

    Science.gov (United States)

    Ma, Jing-Feng; Hou, Kai; Bao, Shang-Lian; Chen, Chun

    2011-02-01

    In this paper we first determine three phases of cell images: background, cytoplasm and nucleolus according to the general physical characteristics of cell images, and then develop a variational model, based on these characteristics, to segment nucleolus and cytoplasm from their relatively complicated backgrounds. In the meantime, the preprocessing obtained information of cell images using the OTSU algorithm is used to initialize the level set function in the model, which can speed up the segmentation and present satisfactory results in cell image processing.

  4. A new level set model for cell image segmentation

    Institute of Scientific and Technical Information of China (English)

    Ma Jing-Feng; Hou Kai; Bao Shang-Lian; Chen Chun

    2011-01-01

    In this paper we first determine three phases of cell images: background, cytoplasm and nucleolus according to the general physical characteristics of cell images, and then develop a variational model, based on these characteristics, to segment nucleolus and cytoplasm from their relatively complicated backgrounds. In the meantime, the preprocessing obtained information of cell images using the OTSU algorithm is used to initialize the level set function in the model, which can speed up the segmentation and present satisfactory results in cell image processing.

  5. Interaction between libraries and library users on Facebook

    OpenAIRE

    Chen, DYT; Maxwell, W.; Li, WZS; Tang, LLC; Chu, SKW

    2011-01-01

    This study adopts the mixed method research design to investigate the interaction between libraries and library users on Facebook. The research objectives are: (1) To find out the performance of Facebook as a tool for interaction between libraries and library users; (2) To find out the differences in using Facebook to interact with library users between libraries in two regions: English-speaking countries and Greater China; (3) To find out the differences between academic and public libraries...

  6. GIBS Geospatial Data Abstraction Library (GDAL)

    Data.gov (United States)

    National Aeronautics and Space Administration — GDAL is an open source translator library for raster geospatial data formats that presents a single abstract data model to the calling application for all supported...

  7. A stochastic model of a cell population with quiescence.

    Science.gov (United States)

    Olofsson, Peter

    2008-10-01

    A cell population in which cells are allowed to enter a quiescent (nonproliferating) phase is analyzed using a stochastic approach. A general branching process is used to model the population which, under very mild conditions, exhibits balanced exponential growth. A formula is given for the asymptotic fraction of quiescent cells, and a numerical example illustrates how convergence toward the asymptotic fraction exhibits a typical oscillatory pattern. The model is compared with deterministic models based on semigroup analysis of systems of differential equations.

  8. Kinetic models in industrial biotechnology - Improving cell factory performance.

    Science.gov (United States)

    Almquist, Joachim; Cvijovic, Marija; Hatzimanikatis, Vassily; Nielsen, Jens; Jirstrand, Mats

    2014-07-01

    An increasing number of industrial bioprocesses capitalize on living cells by using them as cell factories that convert sugars into chemicals. These processes range from the production of bulk chemicals in yeasts and bacteria to the synthesis of therapeutic proteins in mammalian cell lines. One of the tools in the continuous search for improved performance of such production systems is the development and application of mathematical models. To be of value for industrial biotechnology, mathematical models should be able to assist in the rational design of cell factory properties or in the production processes in which they are utilized. Kinetic models are particularly suitable towards this end because they are capable of representing the complex biochemistry of cells in a more complete way compared to most other types of models. They can, at least in principle, be used to in detail understand, predict, and evaluate the effects of adding, removing, or modifying molecular components of a cell factory and for supporting the design of the bioreactor or fermentation process. However, several challenges still remain before kinetic modeling will reach the degree of maturity required for routine application in industry. Here we review the current status of kinetic cell factory modeling. Emphasis is on modeling methodology concepts, including model network structure, kinetic rate expressions, parameter estimation, optimization methods, identifiability analysis, model reduction, and model validation, but several applications of kinetic models for the improvement of cell factories are also discussed.

  9. Application of the Competency Model in Library Management of Human Resources%胜任力模型在图书馆人力资源管理中的应用

    Institute of Scientific and Technical Information of China (English)

    陈祥娟; 刘晓景; 熊娇

    2012-01-01

    The introduction of the competency model in library management of human resources has the extremely important significance for the development of modern library.This article,from the main ideas of the competency model analysed the significance and necessity to establish the compentcy model in library management of human resources,and provided the compentcy model in library management of human resource-based ways and means.%将胜任力模型引入图书馆人力资源管理中,对现代图书馆事业的发展具有重大意义。从胜任力模型的主要理念出发,透析出建立胜任力模型在图书馆人力资源管理中的意义与必要性,并提出基于图书馆人力资源管理构建胜任力模型的方法和途径。

  10. LIBRARY SURVEY 2001

    CERN Multimedia

    2001-01-01

    The primary role of the library is to make sure that you can do YOUR work in the most efficient way possible. To ensure that we continue to match our services to your information needs, the library regularly gathers the views and opinions of its readers in a variety of ways, [link for e-version: http://library/library_general/statistics/library_statistics_ surveys.html], including user surveys. The last survey was carried out in 1996. One of the most visible results of that survey was the extension of the library desk service until seven o'clock in the evening, to meet the demand for greater access to library materials. Now the 'electronic library' is becoming more important than the physical one, we feel it is once again time to ensure that we are providing the services and information you need, in the most effective way possible. We also want to make sure you are aware of the full range of services that the library provides. Please spare just a few minutes to fill out our survey at http://library.cern.ch/su...

  11. News from the Library

    CERN Multimedia

    CERN Library

    2010-01-01

    The LHC Library to be merged with the Central Library. Not everyone knows that CERN Scientific Information Service currently counts three physical libraries on site. The Central Library is located in Building 52 and there are two satellite libraries located respectively in building 30 (the LHC Library) and in building 864 on Prévessin site (the SPS Library). Moreover, the Legal Service Library is located in Building 60. In the past, there have been at CERN up to 6 satellite libraries; they were essential at a time when information was only in paper form and having multiple copies of documents located in several places at CERN was useful to facilitate scientific research. Today, this need is less critical as most of our resources are online. That is why, following a SIPB (Scientific Information Policy Board) decision, the collections of the LHC Library will be merged this summer with the Central collection. This reorganization and centralization of resources will improve loan services. The SP...

  12. A non-local evolution equation model of cell-cell adhesion in higher dimensional space.

    Science.gov (United States)

    Dyson, Janet; Gourley, Stephen A; Webb, Glenn F

    2013-01-01

    A model for cell-cell adhesion, based on an equation originally proposed by Armstrong et al. [A continuum approach to modelling cell-cell adhesion, J. Theor. Biol. 243 (2006), pp. 98-113], is considered. The model consists of a nonlinear partial differential equation for the cell density in an N-dimensional infinite domain. It has a non-local flux term which models the component of cell motion attributable to cells having formed bonds with other nearby cells. Using the theory of fractional powers of analytic semigroup generators and working in spaces with bounded uniformly continuous derivatives, the local existence of classical solutions is proved. Positivity and boundedness of solutions is then established, leading to global existence of solutions. Finally, the asymptotic behaviour of solutions about the spatially uniform state is considered. The model is illustrated by simulations that can be applied to in vitro wound closure experiments.

  13. Modelling electrolyte conductivity in a water electrolyzer cell

    DEFF Research Database (Denmark)

    Caspersen, Michael; Kirkegaard, Julius Bier

    2012-01-01

    An analytical model describing the hydrogen gas evolution under natural convection in an electrolyzer cell is developed. Main purpose of the model is to investigate the electrolyte conductivity through the cell under various conditions. Cell conductivity is calculated from a parallel resistor...... approximation depending on the gas phase distribution. The results are supported by applying a two-phase numerical model which shows good agreement with the analytical approach. The model can prove useful to optimize design factors of an electrolyzer cell for future use in that it provides clear tendencies...... for electrolyte conductivity from combinations of pressure, current density and electrolyte width among others....

  14. Managing ebook metadata in academic libraries taming the tiger

    CERN Document Server

    Frederick, Donna E

    2016-01-01

    Managing ebook Metadata in Academic Libraries: Taming the Tiger tackles the topic of ebooks in academic libraries, a trend that has been welcomed by students, faculty, researchers, and library staff. However, at the same time, the reality of acquiring ebooks, making them discoverable, and managing them presents library staff with many new challenges. Traditional methods of cataloging and managing library resources are no longer relevant where the purchasing of ebooks in packages and demand driven acquisitions are the predominant models for acquiring new content. Most academic libraries have a complex metadata environment wherein multiple systems draw upon the same metadata for different purposes. This complexity makes the need for standards-based interoperable metadata more important than ever. In addition to complexity, the nature of the metadata environment itself typically varies slightly from library to library making it difficult to recommend a single set of practices and procedures which would be releva...

  15. A Study on Library Information Service Model Based on Internet+ Contextualized User Proifle%互联网+图书馆情景化用户偏好的信息服务模式研究

    Institute of Scientific and Technical Information of China (English)

    黄传慧

    2016-01-01

    Internet is profoundly changing the way everyone works and lives. According to the research status at home and abroad this paper analyzes Internet + technology basis, describes the strategy of the information service in library under the of Internet + environment that structures library information service model based on contextualized user proifle in order to promote the development of library information service .%互联网+正在深刻地改变着每一个人的工作和生活方式。文章剖析了互联网+的技术基础,并提出互联网+环境下图书馆信息服务策略,最后构建了互联网+环境下图书馆情景化用户偏好信息服务模式,以期促进图书馆信息服务的发展。

  16. Interactions between airway epithelial cells and dendritic cells during viral infections using an in vitro co-culture model

    Science.gov (United States)

    Rationale: Historically, single cell culture models have been limited in pathological and physiological relevance. A co-culture model of dendritic cells (DCs) and differentiated human airway epithelial cells was developed to examine potential interactions between these two cell t...

  17. Cell models lead to understanding of multi-cellular morphogenesis consisting of successive self-construction of cells.

    Science.gov (United States)

    Honda, Hisao; Nagai, Tatsuzo

    2015-03-01

    Morphogenesis of multi-cellular organisms occurs through cell behaviours within a cell aggregate. Cell behaviours have been described using cell models involving equations of motion for cells. Cells in cell models construct shapes of the cell aggregate by themselves. Here, a history of cell models, the cell centre model and the vertex cell model, which we have constructed, are described. Furthermore, the application of these cell models is explained in detail. These cell models have been applied to transformation of cell aggregates to become spherical, formation of mammalian blastocysts and cell intercalation in elongating tissues. These are all elemental processes of morphogenesis and take place in succession during the whole developmental process. A chain of successive elemental processes leads to morphogenesis. Finally, we highlight that cell models are indispensable to understand the process whereby genes direct biological shapes.

  18. Modelling Neurodegenerative Diseases Using Human Pluripotent Stem Cells

    DEFF Research Database (Denmark)

    Hall, Vanessa J.

    2016-01-01

    Neurodegenerative diseases are being modelled in-vitro using human patient-specific, induced pluripotent stem cells and transgenic embryonic stem cells to determine more about disease mechanisms, as well as to discover new treatments for patients. Current research in modelling Alzheimer’s disease......, frontotemporal dementia and Parkinson’s disease using pluripotent stem cells is described, along with the advent of gene-editing, which has been the complimentary tool for the field. Current methods used to model these diseases are predominantly dependent on 2D cell culture methods. Outcomes reveal that only...... that includes studying more complex 3D cell cultures, as well as accelerating aging of the neurons, may help to yield stronger phenotypes in the cultured cells. Thus, the use and application of pluripotent stem cells for modelling disease have already shown to be a powerful approach for discovering more about...

  19. Modelling planar cell polarity in Drosophila melanogaster

    OpenAIRE

    2009-01-01

    During development, polarity is a common feature of many cell types. One example is the polarisation of whole fields of epithelial cells within the plane of the epithelium, a phenomenon called planar cell polarity (PCP). It is widespread in nature and plays important roles in development and physiology. Prominent examples include the epithelial cells of external structures of insects like the fruit fly Drosophila melanogaster, polarised tissue morphogenesis in vertebrates and sensory hair cel...

  20. Mathematical models in cell biology and cancer chemotherapy

    CERN Document Server

    Eisen, Martin

    1979-01-01

    The purpose of this book is to show how mathematics can be applied to improve cancer chemotherapy. Unfortunately, most drugs used in treating cancer kill both normal and abnormal cells. However, more cancer cells than normal cells can be destroyed by the drug because tumor cells usually exhibit different growth kinetics than normal cells. To capitalize on this last fact, cell kinetics must be studied by formulating mathematical models of normal and abnormal cell growth. These models allow the therapeutic and harmful effects of cancer drugs to be simulated quantitatively. The combined cell and drug models can be used to study the effects of different methods of administering drugs. The least harmful method of drug administration, according to a given criterion, can be found by applying optimal control theory. The prerequisites for reading this book are an elementary knowledge of ordinary differential equations, probability, statistics, and linear algebra. In order to make this book self-contained, a chapter on...