The Experts below are selected from a list of 37203 Experts worldwide ranked by ideXlab platform

Gail Steinhart - One of the best experts on this subject based on the ideXlab platform.

Mackenzie Smith - One of the best experts on this subject based on the ideXlab platform.

  • an open source dynamic Digital Repository
    2009
    Co-Authors: Mackenzie Smith, Mick Bass, Margret Branschofsky, Greg Mcclellan, Mary D Barton, David Stuve
    Abstract:

    For the past two years the Massachusetts Institute of Technology (MIT) Libraries and Hewlett-Packard Labs have been collaborating on the development of an open source system called DSpace™ that functions as a Repository for the Digital research and educational material produced by members of a research university or organization. Running such an institutionally-based, multidisciplinary Repository is increasingly seen as a natural role for the libraries and archives of research and teaching organizations. As their constituents produce increasing amounts of original material in Digital formats—much of which is never published by traditional means—the Repository becomes vital to protect the significant assets of the institution and its faculty. The first part of this article describes the DSpace system including its functionality and design, and its approach to various problems in Digital library and archives design. The second part discusses the implementation of DSpace at MIT, plans for federating the system, and issues of sustainability. DSpace Definition, Features and Functionality

  • automated validation of trusted Digital Repository assessment criteria
    Journal of Digital Information, 2007
    Co-Authors: Reagan Moore, Mackenzie Smith
    Abstract:

    The RLG/NARA trusted Digital Repository (TDR) certification checklist defines a set of preservation assessment criteria. The criteria can be mapped into management policies that define how a Digital preservation environment is operated. We explore how these management policies can be automated through their characterization as rules that control preservation services. By integrating a rule-based data management system with the DSpace Digital library, we expect to demonstrate automated audits of the TDR checklist. The system is sufficiently general that one can also demonstrate the completeness and self-consistency of preservation environments. This is the concept that all required preservation metadata are controlled by management policies, and that for each management policy the required preservation metadata are preserved.

  • dspace a year in the life of an open source Digital Repository system
    European Conference on Research and Advanced Technology for Digital Libraries, 2004
    Co-Authors: Mackenzie Smith, Richard Rodgers, Julie Harford Walker, Robert Tansley
    Abstract:

    The DSpaceTM Digital Repository system was released as open source software in November of 2002. In the year since then it has been adopted by a large number of research universities and other organizations world-wide that need a Digital Repository solution for a number of content types: research articles, gray literature, e-theses, cultural materials, scientific datasets, institutional records, educational materials, and more. The DSpace platform and its various applications are becoming better understood with experience and time. As one result of a recent meeting of the DSpace user community, we are now venturing into the territory of broad, community-based open source development and management, and gaining insights from the experience of the Apache Foundation, Global Grid Forum, and other successful open source projects about how to build open source software for the Digital library domain.

  • the dspace institutional Digital Repository system current functionality
    ACM IEEE Joint Conference on Digital Libraries, 2003
    Co-Authors: Robert Tansley, Mick Bass, David Stuve, Margret Branschofsky, Daniel Chudnov, Greg Mcclellan, Mackenzie Smith
    Abstract:

    We describe DSpace/sup /spl trade//, an open source system that acts as a Repository for Digital research and educational material produced by an organization or institution. DSpace was developed during two years' collaboration between the Hewlett-Packard Company and MIT Libraries. The development team worked closely with MIT Libraries staff and early adopter faculty members to produce a 'breadth-first' system, providing all of the basic features required by a Digital Repository service. As well as functioning as a live service, DSpace is intended as a base for extending Repository functionality, particularly to address long-term preservation concerns. We describe the functionality of the current DSpace system, and briefly describe its technical architecture. We conclude with some remarks about the future development and operation of the DSpace system.

Robert Tansley - One of the best experts on this subject based on the ideXlab platform.

  • dspace a year in the life of an open source Digital Repository system
    European Conference on Research and Advanced Technology for Digital Libraries, 2004
    Co-Authors: Mackenzie Smith, Richard Rodgers, Julie Harford Walker, Robert Tansley
    Abstract:

    The DSpaceTM Digital Repository system was released as open source software in November of 2002. In the year since then it has been adopted by a large number of research universities and other organizations world-wide that need a Digital Repository solution for a number of content types: research articles, gray literature, e-theses, cultural materials, scientific datasets, institutional records, educational materials, and more. The DSpace platform and its various applications are becoming better understood with experience and time. As one result of a recent meeting of the DSpace user community, we are now venturing into the territory of broad, community-based open source development and management, and gaining insights from the experience of the Apache Foundation, Global Grid Forum, and other successful open source projects about how to build open source software for the Digital library domain.

  • the dspace institutional Digital Repository system current functionality
    ACM IEEE Joint Conference on Digital Libraries, 2003
    Co-Authors: Robert Tansley, Mick Bass, David Stuve, Margret Branschofsky, Daniel Chudnov, Greg Mcclellan, Mackenzie Smith
    Abstract:

    We describe DSpace/sup /spl trade//, an open source system that acts as a Repository for Digital research and educational material produced by an organization or institution. DSpace was developed during two years' collaboration between the Hewlett-Packard Company and MIT Libraries. The development team worked closely with MIT Libraries staff and early adopter faculty members to produce a 'breadth-first' system, providing all of the basic features required by a Digital Repository service. As well as functioning as a live service, DSpace is intended as a base for extending Repository functionality, particularly to address long-term preservation concerns. We describe the functionality of the current DSpace system, and briefly describe its technical architecture. We conclude with some remarks about the future development and operation of the DSpace system.

James J P Stewart - One of the best experts on this subject based on the ideXlab platform.

  • Standards-based curation of a decade-old Digital Repository dataset of molecular information
    Journal of Cheminformatics, 2015
    Co-Authors: Matthew J. Harvey, Nicholas J. Mason, Andrew Mclean, Henry S. Rzepa, Peter Murray-rust, James J P Stewart
    Abstract:

    Background The desirable curation of 158,122 molecular geometries derived from the NCI set of reference molecules together with associated properties computed using the MOPAC semi-empirical quantum mechanical method and originally deposited in 2005 into the Cambridge DSpace Repository as a data collection is reported. Results The procedures involved in the curation included annotation of the original data using new MOPAC methods, updating the syntax of the CML documents used to express the data to ensure schema conformance and adding new metadata describing the entries together with a XML schema transformation to map the metadata schema to that used by the DataCite organisation. We have adopted a granularity model in which a DataCite persistent identifier (DOI) is created for each individual molecule to enable data discovery and data metrics at this level using DataCite tools. Conclusions We recommend that the future research data management (RDM) of the scientific and chemical data components associated with journal articles (the “supporting information”) should be conducted in a manner that facilitates automatic periodic curation. Graphical abstract: Standards and metadata-based curation of a decade-old Digital Repository dataset of molecular information.

Massimiliano Izzo - One of the best experts on this subject based on the ideXlab platform.

  • A Digital Repository with an extensible data model for biobanking and genomic analysis management
    BMC Genomics, 2014
    Co-Authors: Massimiliano Izzo, Francesco Mortola, Gabriele Arnulfo, Marco M Fato, Luigi Varesio
    Abstract:

    Motivation Molecular biology laboratories require extensive metadata to improve data collection and analysis. The heterogeneity of the collected metadata grows as research is evolving in to international multi-disciplinary collaborations and increasing data sharing among institutions. Single standardization is not feasible and it becomes crucial to develop Digital repositories with flexible and extensible data models, as in the case of modern integrated biobanks management. Results We developed a novel data model in JSON format to describe heterogeneous data in a generic biomedical science scenario. The model is built on two hierarchical entities: processes and events, roughly corresponding to research studies and analysis steps within a single study. A number of sequential events can be grouped in a process building up a hierarchical structure to track patient and sample history. Each event can produce new data. Data is described by a set of user-defined metadata, and may have one or more associated files. We integrated the model in a web based Digital Repository with a data grid storage to manage large data sets located in geographically distinct areas. We built a graphical interface that allows authorized users to define new data types dynamically, according to their requirements. Operators compose queries on metadata fields using a flexible search interface and run them on the database and on the grid. We applied the Digital Repository to the integrated management of samples, patients and medical history in the BIT-Gaslini biobank. The platform currently manages 1800 samples of over 900 patients. Microarray data from 150 analyses are stored on the grid storage and replicated on two physical resources for preservation. The system is equipped with data integration capabilities with other biobanks for worldwide information sharing. Conclusions Our data model enables users to continuously define flexible, ad hoc, and loosely structured metadata, for information sharing in specific research projects and purposes. This approach can improve sensitively interdisciplinary research collaboration and allows to track patients' clinical records, sample management information, and genomic data. The web interface allows the operators to easily manage, query, and annotate the files, without dealing with the technicalities of the data grid.

  • a Digital Repository with an extensible data model for biobanking and genomic analysis management
    BMC Genomics, 2014
    Co-Authors: Massimiliano Izzo, Francesco Mortola, Gabriele Arnulfo, Marco M Fato, Luigi Varesio
    Abstract:

    Molecular biology laboratories require extensive metadata to improve data collection and analysis. The heterogeneity of the collected metadata grows as research is evolving in to international multi-disciplinary collaborations and increasing data sharing among institutions. Single standardization is not feasible and it becomes crucial to develop Digital repositories with flexible and extensible data models, as in the case of modern integrated biobanks management. We developed a novel data model in JSON format to describe heterogeneous data in a generic biomedical science scenario. The model is built on two hierarchical entities: processes and events, roughly corresponding to research studies and analysis steps within a single study. A number of sequential events can be grouped in a process building up a hierarchical structure to track patient and sample history. Each event can produce new data. Data is described by a set of user-defined metadata, and may have one or more associated files. We integrated the model in a web based Digital Repository with a data grid storage to manage large data sets located in geographically distinct areas. We built a graphical interface that allows authorized users to define new data types dynamically, according to their requirements. Operators compose queries on metadata fields using a flexible search interface and run them on the database and on the grid. We applied the Digital Repository to the integrated management of samples, patients and medical history in the BIT-Gaslini biobank. The platform currently manages 1800 samples of over 900 patients. Microarray data from 150 analyses are stored on the grid storage and replicated on two physical resources for preservation. The system is equipped with data integration capabilities with other biobanks for worldwide information sharing. Our data model enables users to continuously define flexible, ad hoc, and loosely structured metadata, for information sharing in specific research projects and purposes. This approach can improve sensitively interdisciplinary research collaboration and allows to track patients' clinical records, sample management information, and genomic data. The web interface allows the operators to easily manage, query, and annotate the files, without dealing with the technicalities of the data grid.