Research Objects: Towards Exchange and Reuse of Digital Knowledge

Bechhofer, Sean; Roure, David De; Gamble, Matthew; Goble, Carole; Buchan, Iain

doi:10.1038/npre.2010.4626

Cited by 47 publications

(48 citation statements)

References 4 publications

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“…Research objects are annotated aggregations of data often associated with a scientific publication that facilitate reuse and reproducibility of scientific research [31]. Following this model, metadata and links to code lists for articles are available as research objects that can be shared across platforms in machine readable form.…”

Section: The Clinicalcodes Online Repositorymentioning

confidence: 99%

ClinicalCodes: An Online Clinical Codes Repository to Improve the Validity and Reproducibility of Research Using Electronic Medical Records

et al. 2014

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Lists of clinical codes are the foundation for research undertaken using electronic medical records (EMRs). If clinical code lists are not available, reviewers are unable to determine the validity of research, full study replication is impossible, researchers are unable to make effective comparisons between studies, and the construction of new code lists is subject to much duplication of effort. Despite this, the publication of clinical codes is rarely if ever a requirement for obtaining grants, validating protocols, or publishing research. In a representative sample of 450 EMR primary research articles indexed on PubMed, we found that only 19 (5.1%) were accompanied by a full set of published clinical codes and 32 (8.6%) stated that code lists were available on request. To help address these problems, we have built an online repository where researchers using EMRs can upload and download lists of clinical codes. The repository will enable clinical researchers to better validate EMR studies, build on previous code lists and compare disease definitions across studies. It will also assist health informaticians in replicating database studies, tracking changes in disease definitions or clinical coding practice through time and sharing clinical code information across platforms and data sources as research objects.

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Section: The Clinicalcodes Online Repositorymentioning

confidence: 99%

ClinicalCodes: An Online Clinical Codes Repository to Improve the Validity and Reproducibility of Research Using Electronic Medical Records

et al. 2014

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“…One approach to transfer research results are Research Objects (RO [76]), which allow scientists to group and associate the resources and data used to generate a scientific result. Thereby, ROs guarantee reproducibility of the encapsulated research result, and they increase transparency of the procedure how the result was achieved.…”

Section: Sharing Reproducible Simulation Studiesmentioning

confidence: 99%

How Modeling Standards, Software, and Initiatives Support Reproducibility in Systems Biology and Systems Medicine

Waltemath

Wolkenhauer

2016

IEEE Trans. Biomed. Eng.

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“…An initiative being strictly connected with recent achievements in the semantic Web arena is Open Archives Initiative Object Reuse and Exchange (OAI-ORE) [6]. According to OAI-ORE, future papers may be published in the form of "compound digital objects," i.e., organized structures represented as labeled graphs, the nodes of which codify specifi c paper components (data, text, fi gures, etc.…”

Section: Recent Initiatives For Paper Publishingmentioning

confidence: 99%

Effective search and exploitation of electromagnetic knowledge in the web [EM programmer's notebook]

Davidson

Esposito

Tarricone

et al. 2014

IEEE Antennas Propag. Mag.

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This month's contribution addresses an important topic for all of us: how to improve the accuracy of Internet-based literature searches. (At the time of writing, a human expert is still far more likely to provide a useful answer to a question such as, "What is the key reference in fi eld X," than an Inter net search engine). Whilst of course this topic is relevant to all fi elds of scientifi c enquiry, the authors have investigated this here in the specifi c context of electromagnetic engineering. Esposito and Tarricone's group at the University of Salento, Italy, have been regular contributors to this column, including the AbstractWe all are aware of the huge amount of electromagnetic information and knowledge available in the Web, both in the form of PDF scientifi c papers, and in other forms (e.g., software, datasets). Similarly, we all have experienced the frustration of searching the Web for papers and other information, and getting useless or unsatisfactory results. All these limitations clearly demonstrate that information technologies (IT) need further progress so as to improve the effi ciency of the mentioned processes. Indeed, there is fervid activity around this goal, and some interesting achievements have begun to appear in terms of search effectiveness and navigation satisfaction. Novel formats for representing scientifi cpaper contents are proposed, enhancing machine processing capability. However, embracing the new information technology proposals requires a cultural change from authors and from editors, and we cannot take it for granted that it will happen in the near future. Moreover, already-published papers should not be left out from approaching Web innovations. In this paper, we therefore focus both on the emerging technologies for generating more searchable fi les, and on those technologies allowing the transformation of existing PDF fi les into more-effective formats. These technologies need to be customized to each specifi c domain, thus rendering the codifi cation of specifi c electromagnetic (EM) concepts of paramount importance. A use case is proposed on a specifi c EM example, so as to demonstrate the viability and effectiveness of the proposed approach.

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Research Objects: Towards Exchange and Reuse of Digital Knowledge

Cited by 47 publications

References 4 publications

ClinicalCodes: An Online Clinical Codes Repository to Improve the Validity and Reproducibility of Research Using Electronic Medical Records

ClinicalCodes: An Online Clinical Codes Repository to Improve the Validity and Reproducibility of Research Using Electronic Medical Records

How Modeling Standards, Software, and Initiatives Support Reproducibility in Systems Biology and Systems Medicine

Effective search and exploitation of electromagnetic knowledge in the web [EM programmer's notebook]

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