Skip to main content

Advertisement

Log in

A vision towards Scientific Communication Infrastructures

On bridging the realms of Research Digital Libraries and Scientific Data Centers

  • Published:
International Journal on Digital Libraries Aims and scope Submit manuscript

Abstract

The two pillars of the modern scientific communication are Data Centers and Research Digital Libraries (RDLs), whose technologies and admin staff support researchers at storing, curating, sharing, and discovering the data and the publications they produce. Being realized to maintain and give access to the results of complementary phases of the scientific research process, such systems are poorly integrated with one another and generally do not rely on the strengths of the other. Today, such a gap hampers achieving the objectives of the modern scientific communication, that is, publishing, interlinking, and discovery of all outcomes of the research process, from the experimental and observational datasets to the final paper. In this work, we envision that instrumental to bridge the gap is the construction of “Scientific Communication Infrastructures”. The main goal of these infrastructures is to facilitate interoperability between Data Centers and RDLs and to provide services that simplify the implementation of the large variety of modern scientific communication patterns.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1
Fig. 2

Similar content being viewed by others

Notes

  1. Elsevier Supplementary Data, http://www.elsevier.com/journals/vaccine/0264-410X/guide-for-authors#87000.

  2. SAGE Journals, Author Guide to Supplementary Files, http://www.uk.sagepub.com/repository/binaries/doc/Supplemental_data_on_sjo_guidelines_for_authors.doc.

  3. For example JISC’s “what we do”: http://www.jisc.ac.uk/whatwedo/programmes/-di_researchmanagement/managingresearchdata/research-data-publication.aspx.

  4. Data Cite, http://www.datacite.org.

  5. Digital Object Identifier System, http://www.doi.org.

  6. PANGAEA, http://www.pangaea.de.

  7. Joint Data Archiving Policy (JDAP), http://www.dryad.org/jdap.

  8. DRYAD Repository, http://datadryad.org/.

  9. GigaScience journal, http://www.gicasciencejournal.com.

  10. JOAD, http://openarchaeologydata.metajnl.com.

  11. Global Biodiversity Information Facility, http://www.gbif.org.

  12. Earth System Science Data Journal, http://www.earth-system-science-data.net.

  13. UK PubMedCentral, http://ukpmc.ac.uk/.

  14. What’s it!, http://www.ebi.ac.uk/webservices/whatizit/info.jsf.

  15. Pilot with Biochemical Journal, http://www.biochemj.org/bj/424/3/.

  16. Infrastructure for Spatial Information in the European Community, http://inspire.jrc.ec.europa.eu.

  17. OAI Protocol for Metadata Harvesting, http://www.openarchives.org/pmh.

  18. Open Annotation W3C community group, http://www.w3.org/community/openannotation.

  19. Europeana, http://www.europeana.eu.

  20. NARCIS, http://www.narcis.nl.

  21. Sweden ScienceNet, http://www.sciencenet.se.

  22. EuroCRIS, The European Organization for International Research Information, http://www.eurocris.org.

  23. OpenAIRE project and infrastructure, http://www.openaire.eu.

  24. OurSpaces, http://www.ourspaces.net.

  25. Research Data Alliance, http://rd-alliance.org.

  26. e-Infrastructure Reflection Group, http://www.e-irg.eu.

References

  1. Gray, J.: A transformed scientific method. In: The Fourth Paradigm: Data Intensive Scientific Discovery. Microsoft, Redmond (2009)

  2. Towards 2020 Science, Report of the 2020 Science Workshop, Venice, 30 June–1 July 2005. Microsoft Corporation (2006). http://research.microsoft.com/en-us/um/cambridge/projects/towards2020science

  3. Lord, P, Macdonald, A.: e-Science Curation Report prepared for the JISC Committee for the Support of Research. The Digital Archiving Consultancy Ltd., London (2003). http://www.jisc.ac.uk/uploaded_documents/e-ScienceReportFinal.pdf

  4. Mooney, H., Newton, MP.: The anatomy of a data citation: discovery, reuse, and credit. J. Librariansh. Sch. Commun. 1(1):eP1035 (2012). http://dx.doi.org/10.7710/2162-3309.1035

  5. Altman M., King G.: A proposed standard for the scholarly citation of quantitative data. D-Lib Mag. (2007)

  6. White, H.C., Carrier, S., Thompson, A., Greenberg, J., Scherle, R.: The Dryad data repository: a Singapore framework metadata architecture in a DSpace environment. In: Proceedings of the International Conference on Dublin Core and Metadata Applications (DCMI ’08), pp. 157–162. Dublin Core Metadata Initiative, Dublin (2008)

  7. Candela, L., Katifori, A., Manghi, P.: e-Infrastructures. In: Meier zu Verl, C., Horstmann, W. (eds.) Studies on Subject-Specific Requirements for Open Access Infrastructures, pp. 125–164. Universitatsbibliothek Bielefeld, Bielefeld (2011)

  8. Csordas, A., Ovelleiro, D., Wang, R., Foster, J.M., R’os, D., Vizca’no, J.A., Hermjakob, H.: PRIDE: Quality Control in a Proteomics Data Repository. Database 2012: bas004. (2012). doi:10.1093/database/bas004

  9. Reilly, S., Schallier, W., Schrimpf, S., Smit, E., Wilkinson, M.: Report on Integration of Data and Publications. Opportunities for Data Exchange (ODE). (2011)

  10. Callaghan, S., Donegan, S., Pepler, S., Thorley, M., Cunningham, N., Kirsch, P., Ault, L., Bell, P., Bowie, R., Leadbetter, A., Lowry, R., Moncoiffe, G., Harrison, K., Smith-Haddon, B., Weatherby, A., Wright, D.: Making data a first class scientific output: data citation and publication by NERC’s environmental data centers. Int. J. Digit. Curation 7(1), 107–113 (2012)

    Google Scholar 

  11. Towards better access to scientific information: boosting the benefits of public investments in research. Communication from the Commission to the European Parliament, The Council, the European Economic and Social Committee and the Committee of the Regions. COM (2012) 401 final. Brussels, 17.7.2012. http://ec.europa.eu/research/science-society/document_library/pdf_06/era-communication-towards-better-access-to-scientific-information_en.pdf

  12. JISC an data. Data centres: their use, value and impact. A Research Information Network report, September 2011. http://www.jisc.ac.uk/news/stories/2011/09/~/media/-Data%20Centres-Updated.ashx

  13. Voss, A., Procter, R.: Virtual research environments in scholarly work and communications. Library Hi Tech 27(2):174–190 (2009)

    Google Scholar 

  14. Borgman, C.L.: The conundrum of sharing research data. J. Am. Soc. Inf. Sci. Technol. 63(6):1059–1078 (2012). http://dx.doi.org/10.1002/asi.22634

  15. Pampel, H., Pfeiffenberger, H., Schfer, A., Smit, E., Prll, S., Bruch, C.: Report on Peer Review of Research Data in Scholarly Communication (2012). hdl:10013/epic.39289

  16. Renear, A., Palmer, C.: Strategic Reading, Ontologies, and the Future of Scientific Publishing, Science, vol. 325. (2009)

  17. Simons, N.: Implementing DOIs for research data. D-Lib Mag. 18(5/6), (2012). doi:10.1045/may2012-simons

  18. Starr, J., Gastlis, A.: CitedBy: a metadata scheme for DataCite. D-Lib Mag. 17(1/2) (2011). doi:10.1045/january2011-starr

  19. Green, T.: We Need Publishing Standards for Datasets and Data Tables. OECD Publishing White Paper, OECD Publishing, Paris (2009). doi:10.1787/603233448430

  20. Smith, M., Barton, M., et al.: DSpace: an open source dynamic digital repository. D-Lib Mag. 9(1), (2003). http://www.dlib.org/dlib/january03/smith/01smith.html

  21. Payette, S., Lagoze, C.: Flexible and extensible digital objects repository architecture (FEDORA). In: Research and Advanced Technology for Digital Libraries. Proceedings of the Second Conference on Digital Libraries, ECDL 98, Crete, Greece. Springer Lecture Notes in Computer Science, pp. 41–59. (1998)

  22. Witten, I.H., Bainbridge D.: How to Build a Digital Library. Elsevier, Amsterdam (2002)

  23. De Schutter, E.: Data publishing and scientific journals: the future of the scientific paper in a world of shared data. Neuroinform. J. 8(3), 151–153 (2010). doi:10.1007/s12021-010-9084-8

    Article  Google Scholar 

  24. Vishwas, C., Penev, L.: The data paper: a mechanism to incentivize data publishing in biodiversity science. BMC Bioinform. 12(Suppl 15), S2 (2011). doi:10.1186/1471-2105-12-S15-S2

    Article  Google Scholar 

  25. Shotton, D.: Semantic publishing: the coming revolution in scientific journal publishing. Learn. Publ. 22(2), 85–94 (2009)

    Article  Google Scholar 

  26. David Tempest (Universal Access Team Leader, Elsevier UK) Journals and data publishing: enhancing, linking and mining. In: DCC Research Data Management Forum 8: Research Data Management—Engaging with the Publishers, Southampton, 29–30 March 2012

  27. Castelli, D., Pagano, P.: OpenDLib: a digital library service system. In: Proceedings of the 6th European Conference on Research and Advanced Technology for Digital Libraries (ECDL’02) (2002)

  28. Aalbersberg, I.J., Heeman, F., Koers, H., Zudilova-Seinstra, E.: Elsevier’s article of the future enhancing the user experience and integrating data through applications. Insights UKSG J. 25(1), 33–43 (2012)

    Article  Google Scholar 

  29. Attwood, T.K., Kell, D.B., McDermott, P., Marsh, J., Pettifer, S.R., Thorne, D.: Utopia documents: linking scholarly literature with research data. Bioinformatics 26(18):i568–74 (2010). doi:10.1093/bioinformatics/btq383

    Google Scholar 

  30. Pham, Q., Malik, T., Foster, I., Di Lauro, R., Montella, R.: SOLE: linking research papers with science objects. In: Provenance and Annotation of Data and Processes. Lecture Notes in Computer Science, vol. 7525, pp. 203–208. (2012). doi:10.1007/978-3-642-34222-6_16

  31. Woutersen-Windhouwer, S., Brandsma, R., Verhaar, P., Hogenaar, A., Hoogerwerf, M., Doorenbosch, P., Durr, E., Ludwig, J., Schmidt, B., Sierman, B.: Enhanced Publications. In Vernooy-Gerritsen, M. (ed.) SURF Foundation, Amsterdam University Press, Amsterdam (2009)

  32. Kircz, J.G.: New practices for electronic publishing new forms of the scientific paper. Learn. Publ. 15(1), (2002)

  33. Candela, L., Castelli, D., Pagano, P., Simi, M.: From heterogeneous information spaces to virtual documents. In: Fox, E.A., Neuhold, E.J., Premsmit, P., Wuwongse, V. (eds.) Digital Libraries: Implementing Strategies and Sharing Experiences: 8th International Conference on Asian Digital Libraries, ICADL 2005 (Bangkok, Thailand, 12–1 December). Proceedings, pp. 11–22. (2005)

  34. Lynch, C.: Jim Gray’s fourth paradigm and the construction of the scientific record. In: Hey, T., Tansley, S., Tolle, C. (eds.) The Fourth Paradigm, pp. 177–183. Microsoft Corporation, Redmond (2009)

  35. Hunter, J.: Scientific Models: A User-Oriented Approach to the Integration of Scientific Data and Digital Libraries. VALA 2006, Melbourne (2006)

  36. Bechhofer, S., De Roure, D., Gamble, M., Goble, C., Buchan, I.: Research objects: towards exchange and reuse of digital knowledge. In: Proceedings of The Future of the Web for Collaborative Science (FWCS 2010), Raleigh, NC, USA. http://www.w3.org/wiki/HCLS/WWW2010/Workshop

  37. Brammer, G.R., Crosby, R.W., Matthews, S.J., Williams, T.L.: Paper mch: creating dynamic reproducible science. Procedia Comput. Sci. 4, 658–667 (2011). doi:10.1016/j.procs.2011.04.069

    Article  Google Scholar 

  38. Van Gorp, P., Mazanek, S.: SHARE: a web portal for creating and sharing executable research papers. Procedia Comput. Sci. 4, 89–597 (2011). doi:10.1016/j.procs.2011.04.062

    Google Scholar 

  39. McCallum, I., Plag, H.P., Fritz, S.: Data citation standard: a means to support data sharing, attribution, and traceability. In: Abbasi, A., Giesen, N. (eds.) EGU General Assembly Conference Abstracts, vol. 14. Series EGU General Assembly. (2012)

  40. Schfer, A., Pampel, H., Pfeiffenberger, H., Dallmeier-Tiessen, S., Tissari, S., Darby, R., Giaretta, K., Giaretta, D., Gitmans, K., Helin, H., Lambert, S., Mele, S., Reilly, S., Ruiz, S., Sandberg, M., Schallier, W., Schrimpf, S., Smit, E., Wilkinson, M. Wilson, M.: Baseline Report on Drivers and Barriers in Data Sharing. (2011)

  41. da Silva, J.R., Ribeiro, C., Lopes, J.C.: Semi-automated application profile generation for research data assets. In: Metadata and Semantics Research Communications in Computer and Information Science, vol. 343, pp. 98–106. (2012)

  42. Berners-Lee, T.: Linked Data. Archived on December 1st, 2006. (2006) http://web.archive.org/web/20061201121454, http://www.w3.org/DesignIssues/LinkedData.html

  43. Bizer, C., Heath, T., Berners-Lee, T.: Linked Data—the story so far. Int. J. Semant. Web Inf. Syst. 5(3), 1–22 (2009). doi:10.4018/jswis.2009081901

    Article  Google Scholar 

  44. Lagoze, C., Van de Sompel, H.: The OAI Protocol for Object Reuse and Exchange. http://www.openarchives.org/ore

  45. Heath, T., Bizer, C.: Linked Data: evolving the web into a global data space. In: Synthesis Lectures on the Semantic Web: Theory and Technology, vol. 1, issue no. 1, pp. 1–136. Morgan & Claypool, Palo Alto (2011). Retrieved from http://linkeddatabook.com/editions/1.0/#htoc9

  46. Ed Summers: Linking Things on the Web: A Pragmatic Examination of Linked Data for Libraries, Archives and Museums. Library of Congress (2013). arXiv:1302.4591

  47. Hyvnen, Eero: Publishing and Using Cultural Heritage Linked Data on the Semantic Web. Morgan & Claypool, Palo Alto (2012)

  48. Meier zu Verl, C., Horstmann, W. (eds.) Studies on Subject-Specific Requirements for Open Access Infrastructure. Universittsbibliothek, Bielefeld (2011). doi:10.2390/PUB-2011-1

  49. Bechhofer, S., Buchan, I., De Roure, D., Missier, P., Ainsworth, J., Bhagat, J., Couch, P., Cruickshank, D., Delderfield, M., Dunlop, I., Gamble, M., Michaelides, D., Owen, S., Newman, D., Sufi, S., Goble, C.: Why Linked Data is Not Enough for Scientists. Future Generation Computer Systems. (2011). Available online 19 August ISSN:0167-739X. doi:10.1016/j.future.2011.08.004

  50. Breeze, J.L., Jean-Baptiste, P.: Data sharing and publishing in the field of neuroimaging. Gigascience 1.1, 1–3 (2012)

    Google Scholar 

  51. Parsons, M.A., Duerr, R., Minster, J.B.: Data citation and peer review. Eos Trans. AGU 91(34), 297 (2010). doi:10.1029/2010EO340001

    Article  Google Scholar 

  52. Schindler, C., Veja, C., Rittberger, M., Vrandecic, D.: How to teach digital library data to swim into research. In: Ghidini, C., Ngomo, A.-C.N., Lindstaedt, S.N., Pellegrini, T. (eds.) Proceedings of the 7th International Conference on Semantic Systems (I-Semantics ’11). ACM, New York, NY, USA, 142–149. (2011) doi:10.1145/2063518.2063537. http://doi.acm.org/10.1145/2063518.2063537

  53. Krtzsch, M., Vrandecic, D., Volkel, M.: Semantic MediaWiki. In: The Semantic Web—ISWC. LNCS 4273, pp. 935–942. Springer, Berlin (2006). doi:10.1007/119260

  54. Quilitz, B., Leser, U.: Querying distributed RDF data sources with SPARQL. In: Proceedings of The Semantic Web: Research and Applications. Lecture Notes in Computer Science, vol. 5021, pp. 524–538. (2008). doi:10.1007/978-3-540-68234-9_39

  55. Zeng, K., Yang, J., Wang, H., Shao, B., Wang, Z.: A distributed graph engine for web scale RDF data. In: Proceedings of the VLDB Endowment, vol. 6, issue no. 4. (2013)

  56. Johansson, A., Ottosson, M.O.: A national current research information system for Sweden. In: e-Infrastructures for Research and Innovation: Linking Information Systems to Improve Scientific Knowledge Production, pp. 67–71. Agentura Action M (2012)

  57. Asserson, A., Jeffery, K., Lopatenko, A.: CERIF: past, present and future: an overview. In: Proceedings: Gaining Insight from Research Information. 6th International Conference on Current Research Information Systems. Kassel, Germany (2002)

  58. Manghi, P., Mikulicic, M., Candela, L., Castelli, D., Pagano, P.: Realizing and maintaining aggregative digital library systems: D-NET software toolkit and OAIster dystem. D-Lib Mag. 16(3/4), (2010)

  59. Developing Data Attribution and Citation Practices and Standards. An International Symposium and Workshop. August 22–23, US CODATA and the Board on Research Data and Information, in collaboration with CODATA-ICSTI Task Group on Data Citation Standards and Practices. (2011). http://sites.nationalacademies.org/PGA/brdi/PGA_064019

  60. British Library, Datacite, Jisc. Workshop report-describe, disseminate, discover: metadata for effective data citation, published by C. Wilkinson, 24 july (2012). http://www.datacite.org/node/67

  61. Manghi, P., Bolikowski, L., Manola, N., Shirrwagen, J., Smith, T.: Openaireplus: the european scholarly communication data infrastructure. D-Lib Mag. 18(9–10), (2012)

  62. Allinson, J., Franois, S., Lewis, S.: Sword: simple web-service offering repository deposit. Ariadne 54, 2 (2008)

    Google Scholar 

  63. Schmidt, M.-T., et al.: The enterprise service bus: making service-oriented architecture real. IBM Syst. J. 44(4), 781–797 (2005)

    Article  Google Scholar 

  64. GRDI2020 Consortium. Global Research Data Infrastructures: The Big Data Challenges. GRDI200 Final Roadmap Report, February 2012. http://www.grdi2020.eu/Repository/FileScaricati/e2b03611-e58f-4242-946a-5b21f17d2947.pdf

  65. Mazurek, C., Mielnicki, M., Nowak, A., Stroinski, M., Werla, M., Weglarz, J.: Architecture for aggregation, processing and provisioning of data from heterogeneous scientific information services. In Bembenik, R., Skonieczny, L., Rybinski, H., Kryszkiewicz, M., Niezgodka, M. (eds.) Intelligent Tools for Building a Scientific Information Platform. Studies in Computational Intelligence, vol. 467 , pp. 529–546. Springer, Berlin (2013). ISBN:1978-3-642-35646-9. doi:10.1007/978-3-642-35647-632

  66. Candela, L., Castelli, D., Pagano, P.: gCube: A service-oriented application framework on the grid. ERCIM News 48–49 (2008)

  67. Manghi, P., Manola, N., Horstmann, W., Peters, D.: An infrastructure for managing EC funded research output. Int. J. Grey Lit. 6(1), (2010). http://www.openaire.eu/it/about-openaire/publications-presentations/doc_details/189-an-infrastructure-for-managing-ec-funded-research-output

Download references

Acknowledgments

The authors wish to thank Maria Bruna Baldacci who provided valuable advice to the writing of this paper. This work is partially supported by the European Commission as part of the project OpenAIREplus (FP7-INFRA-2011-2, Grant Agreement No. 283595).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Paolo Manghi.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Castelli, D., Manghi, P. & Thanos, C. A vision towards Scientific Communication Infrastructures. Int J Digit Libr 13, 155–169 (2013). https://doi.org/10.1007/s00799-013-0106-7

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00799-013-0106-7

Keywords

Navigation