References

Aalbersberg, I. J., Heeman, F., Koers, H., & Zudilova-Seinstra, E. (2012). Elsevier‘s article of the future enhancing the user experience and integrating data through applications. Insights: The UKSG Journal, 25(1), 33–43. doi: 10.1629/2048-7754.25.1.33.

Attwood, T. K., Kell, D. B., McDermott, P., Marsh, J., Pettifer, S. R., & Thorne,

D. (2010). Utopia documents: linking scholarly literature with research data. Bioinformatics, 26(18), i568–i574. doi: 10.1093/bioinformatics/btq383. Retrieved May 7, 2013, from http://bioinformatics.oxfordjournals.org/content/26/18/i568.full.pdf+html.

Bechhofer, S., De Roure, D., Gamble, M., Goble, C., & Buchan, I. (2010). Research objects: Towards exchange and reuse of digital knowledge. Retrieved May 7, 2013, from http://imageweb.zoo.ox.ac.uk/pub/2010/Proceedings/FWCS2010/05/Paper5.pdf.

Brammer, G. R., Crosby, R. W., Matthews, S. J., & Williams, T. L. (2011). Paper mâché: Creating dynamic reproducible science. Procedia Computer Science, 4, 658–667. doi:10.1016/j.procs.2011.04.069. Retrieved May 7, 2013, from http://ac.els-cdn.com/S187705091100127X/1-s2.0-S187705091100127X-main.pdf?_tid=f67bd05a-b758-11e2-ae67-00000aacb35d&acdnat=1367960529_7442f5f9384c4e8a45715b21ab31e0d.

Breure, L., Voorbij, H., & Hoogerwerf, M. (2011). Rich internet publications: “Show what you tell”. Journal of Digital Information, 12(1). Retrieved May 7, 2013, from http://journals.tdl.org/jodi/index.php/jodi/article/view/1606/1738.

Callaghan, S., Donegan, S., Pepler, S., Thorley, M., Cunningham, N., Kirsch, P., et al. (2012). Making data a first class scientific output: Data citation and publication by NERC’s Environmental Data Centres. International Journal of Digital Curation, 7(1), 107–113. doi: 10.2218/ijdc.v7i1.218. Retrieved May 7, 2013, from http://www.ijdc/article/view/208/277.

Candela, L., Castelli, D., & Pagano, P. (2009a). OpenDLib: A digital library service system. In Y. Theng, S. Foo, D. Goh & J. Na (Eds.), Handbook of research on digital libraries: Design, development, and impact (pp. 1–7). Hershey, PA: Information Science Reference. doi: 10.4018/978-1-59904-879-6.ch001.

Candela, L., Castelli, D., & Pagano, P. (2009b). D4Science: an e-Infrastructure for Supporting Virtual Research Environments. In M. Agosti, F. Esposito, C. Thanos (Eds.), Post-proceedings of the Fifth Italian Research Conference on Digital Libraries – IRCDL 2009 (pp. 166–169). Delos, Network for excellence on digital libraries.

Candela, L., Castelli, D., Pagano, P., & Simi, M. (2005). From heterogeneous information spaces to virtual documents. In E. A. Fox & E. J. Neuhold (Eds.), Digital libraries: Implementing strategies and sharing experiences (pp. 11–22). Berlin, Heidelberg: Springer.

Candela, L., Castelli, D., Ferro, N., Ioannidis, Y., Koutrika, G., Meghini, C., Pagano, P., Ross, S., Soergel, D., Agosti, M., Dobreva, M., Katifori, V., & Schuldt, H. (2008). The DELOS Digital Library Reference Model – Foundations for Digital Libraries (Version 0.98). 2007 from http://www.delos.info/files/pdf/ReferenceModel/DELOS_DLReferenceModel_098.

Carusi, A., & Reimer, T. (2010). Virtual research environment collaborative landscape study. JISC, Bristol. Retrieved May 7, 2013, from http://www.jisc.ac.uk/media/documents/publications/vrelandscapereport.pdf.

Castelli, D., Manghi, P., & Thanos, C. (2013). A vision towards Scientific Communication Infrastructures. International Journal on Digital Libraries, 13(3–4), 155–169. Springer Berlin Heidelberg. http://dx.doi.org/10.1007/s00799-013-0106-7.

Cheung, K., Hunter, J., Lashtabeg, A., & Drennan, J. (2008). SCOPE: a scientific compound object publishing and editing system. International Journal of Digital Curation, 3(2), 4–18. doi: 10.2218/ijdc.v3i2.55. Retrieved May 7, 2013, from http://www.ijdc.net/index.php/ijdc/article/view/84/55.

De Roure, D., Goble, C., & Stevens, R. (2009). The design and realisation of the Virtual Research Environment for social sharing of workflows. Future Generation Computer Systems 25(5), 561–567.

Diepenbroek, M., Grobe, H., Reinke, M., Schindler, U., Schlitzer, R., Sieger, R., & Wefer, G. (2002). PANGAEA – an information system for environmental sciences. Computers & Geosciences, 28(10), 1201–1210.

Farace, D. J., Frantzen, J., Stock, C., Sesink, L., & Rabina, D. L. (2012). Linking fulltext grey literature to underlying research and post-publication data: An Enhanced Publications Project 2011–2012. The Grey Journal, 8(3), 181–189. Retrieved February 19, 2013, from http://www.opengrey.eu/data/70/01/53/GL13_Farace_et_al_2012_Conference_Preprint.pdf.

Fink, J. L., & Bourne, P. E. (2007). Reinventing scholarly communication for the electronic age. CTWatch Quarterly, 3(3), 26–31. Retrieved May 7, 2013, from http://www.ctwatch.org/quarterly/articles/2007/08/reinventing-scholarly-communication-for-the-electronic-age/.

Garcia Castro, J. L., McLaughlin, C., & Garcia, A. (2013). Biotea: RDFizing PubMed Central in support for the paper as an interface to the Web of Data. Journal of Biomedical Semantics, 4(Suppl 1), S5. Retrieved October 4, 2013, from http://www.jbiomedsem.com/content/4/S1/S5.

Gerber, A., & Hunter, J. (2010). Authoring, editing and visualizing compound objects for literary scholarship. Journal of Digital Information, 11(1). Retrieved May 7, 2013, from http://journals.tdl.org/jodi/index.php/jodi/article/view/755.

Giles, J. (2005). Internet encyclopaedias go head to head. Nature, 438(7070), 900–901. doi: 10.1038/438900a.

Gray, J. (2007). A transformed scientific method. In T. Hey, S. Tansley, & K. Tolle (Eds.), The Fourth Paradigm: Data Intensive Scientific Discovery. Redmond, WA: Microsoft. Retrieved May 7, 2013, from http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_jim_gray_transcript.pdf.

Haigh, C. A. (2011). Wikipedia as an evidence source for nursing and healthcare students. Nurse Education Today, 31(2), 135–139. Retrieved May 7, 2013, from http://download.journals.elsevierhealth.com/pdfs/journals/0260-6917/PIIS0260691710000912.pdf.

Hoeppner, M. A. (2013). NCBI Bookshelf: books and documents in life sciences and health care. Nucleic Acids Research, 41(D1), D1251–D1260. doi:10.1093/nar/gks1279. Retrieved May 7, 2013, from http://nar.oxfordjournals.org/content/41/D1/D1251.full.pdf+html.

Hoogerwerf, M. (2009). Durable enhanced publications. Proceedings of African Digital Scholarship & Curation. Retrieved May 7, 2013, from http://www.ais.up.ac.za/digi/ docs/hoogerwerf_paper.pdf .

Hoogerwerf, M., Lösch, M., Schirrwagen, J., Callaghan, S., Manghi, P., Iatropoulou, K., et al. (2013). Linking and enriching data and publications across subject-specific infrastructures – Challenges and issues for a multidisciplinary approach. In Proceedings of the 8th International Digital Curation Conference, Amsterdam. PowerPoint retrieved May 7, 2013, from http://www.dcc.ac.uk/sites/default/files/documents/IDCC13presentations/Hoogerwerf2IDCC13.pdf.

Hunter, J. (2006a). Scientific models – A user-oriented approach to the integration of scientific data and digital libraries. Retrieved May 7, 2013, from http://www.valaconf.org.au/vala2006/papers2006/55_Hunter_Final.pdf.

Hunter, J. (2006b). Scientific publication packages – A selective approach to the communication and archival of scientific output. International Journal of Digital Curation 1, 33–52. doi: 10.2218/ijdc.v1i1.4. Retrieved May 7, 2013, from http://www.ijdc.net/index.php/ijdc/article/view/8/4.

Hunter, J., & Cheung, K. (2007). Provenance Explorer – a graphical interface for constructing scientific publication packages from provenance trails. International Journal on Digital Libraries, 7, 99–107. doi: 10.1007/s00799-007-0018-5.

Jankowski, N. W., Scharnhorst, A., Tatum, C., & Tatum, Z. (2013). Enhancing scholarly publications: Developing hybrid monographs in the humanities and social sciences (January 10, 2012). Scholarly and Research Communication, 4(1): 010138, 26 pp. Retrieved May 7, 2013, from http://src-online.ca/index.php/src/article/viewFile/40/123.

Johansson, Å., & Ottosson, M. O. (2012). A national Current Research Information System for Sweden. In e-Infrastructures for Research and Innovation: Linking Information Systems to Improve Scientific Knowledge Production, Uppsala University, University Administration, pp. 67–71, Agentura Action M.

Jörg, B. (2010). CERIF: The common European research information format model. Data Science Journal, 9, CRIS24–CRIS31. Retrieved May 7, 2013, from https://www.jstage.jst.go.jp/article/dsj/9/0/9_CRIS4/_pdf.

Kircz, J. G. (2002). New practices for electronic publishing 2: New forms of the scientific paper. Learned Publishing, 15, 27–32. doi: http://dx.doi. . Retrieved May 7, 2013, from http://docserver.ingentaconnect.com/deliver/connect/alpsp/09531513/v15n1/s4.pdf?expires=1368021284&id=74113678&titleid=885&accname=Guest+User&checksum=D96C2BE551BCA2AF16B92BA63C967104.

Lagoze, C., Van de Sompel, H., Nelson, M., Warner, S., Sanderson, R., & Johnston, P. (2012). A Web-based resource model for scholarship 2.0: object reuse & exchange. Concurrency and Computation: Practice and Experience, 24(18), 2221–2240. doi: 10.1002/cpe.1594.

Lee, J-W., Lee, K. H., & Kim, W. (2001). Preparations for semantics-based XML mining. In N. Cercone, T.Y. Lin, & X. Wu (Eds.), ICDM, Proceedings IEEE International Conference on Data Mining (pp. 345–352). IEEE Computer Society. doi: 10.1109/ ICDM.2001.989538.

Lord, P., & Macdonald, A. (2003). e-Science curation report, prepared for the JISC Committee for the Support of Research. The Digital Archiving Consultancy Ltd. Retrieved May 7, 2013, from http://www.jisc.ac.uk/uploaded_documents/eScienceReportFinal.pdf.

Lossau, N., & Peters, D. (2008). DRIVER: Building a sustainable infrastructure of European scientific repositories. Liber Quarterly 18(3/4), 437–448. Retrieved May 7, 2013, from http://liber.library.uu.nl/index.php/lq/article/view/7942/8215x.

Manghi, P., Bolikowski, L., Manola, N., Schirrwagen, J., & Smith, T. (2012). Open-AIREplus: the European Scholarly Communication Data Infrastructure. D-Lib Magazine, 18(9–10). Retrieved May 7, 2013, from http://www.dlib.org/dlib/september12/manghi/09manghi.html/.

Mathiak, B., Kupfer, A., Münch, R., Täubner, C., & Eckstein, S. (2005). Mining PDF documents for pictures. In B. Berendt, A. Hoth, et al. (Eds.), European Web Mining Forum (EWMF 2005) (pp. 52–63).

McEntyre, J. R., Ananiadou, S., Andrews, S., Black, W. J., Boulderstone, R., Buttery, P., et al. (2011). UKPMC: a full text article resource for the life sciences. Nucleic Acids Research, 39(suppl 1), D58–D65. doi: 10.1093/nar/gkq1063. Retrieved May 7, 2013, from http://nar.oxfordjournals.org/content/39/suppl_1/D58.full.pdf+html.

Michener, W., Vieglais, D., Vision, T., Kunze, J., Cruse, P., & Janée, G. (2011). DataONE: Data observation network for earth-preserving data and enabling innovation in the biological and environmental sciences. D-Lib Magazine, 17(1), 3. Retrieved May 7, 2013, from http://www.dlib.org/dlib/january11/michener/01michener.html.

Mooney, H., & Newton, M. P. (2012). The anatomy of a data citation: Discovery, reuse, and credit. Journal of Librarianship and Scholarly Communication, 1(1), eP1035. doi: 10.7710/2162-3309.1035 . Retrieved May 7, 2013, from http://jlsc-pub.org/jlsc/vol1/iss1/6/.

Nayak, R., Witt, R., & Tonev, A. (2002). Data mining and XML documents. In International Conference on Internet Computing, IC’2002, June 24–27, 2002, Las Vegas, Nevada (pp. 660–666). Retrieved May 7, 2013, from http://eprints.qut.edu.au/1476/1/1476.pdf.

Newman P., & Corke P. (2009). Editorial: Data papers – Peer reviewed publication of high quality data sets. International Journal of Robotic Research, 28(5), 587–587. doi: 10.1177/0278364909104283. Retrieved May 7, 2013, from http://ijr.sagepub.com/content/28/5/587.full.pdf+html.

Nowakowski, P., Ciepiela, E., Hare˛zlak, D., Kocot, J., Kasztelnik, M., Bartyn´ski, T.. et al. (2011). The Collage Authoring Environment. Procedia Computer Science, 4, 608–617. doi: 0.1016/j.procs.2011.04.064.

Page, R. D. M. (2011). Linking NCBI to Wikipedia: a wiki-based approach. PLoS Currents, 3, RRN1228. doi: 10.1371/currents.RRN1228. Retrieved May 7, 2013, from http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3080707/.

Parsons, M. A., & Fox, P. A. (2013). Is data publication the right metaphor? Data Science Journal, 12(0), WDS32–WDS46. doi: 10.2481/dsj.wds-042.

Peng, F., & McCallum, A. (2004). Accurate information extraction from research papers using conditional random fields. HLT-NAACL, 329–336. doi: 10.1016/j.ipm.2005.09.002. Retrieved May 7, 2013, from http://people.cs.umass.edu/~mccallum/papers/ hlt2004.pdf.

Pepe, A., Mayernik, M. S., Borgman, C. L., & Van de Sompel, H. (2009). Technology to represent scientific practice: Data, life cycles, and value chains. CoRR abs/0906.2549. Retrieved May 7, 2013, from http://arxiv.org/vc/arxiv/papers/0906/0906.2549v1.pdf.

Pham, Q., Malik, T., Foster, I., Di Lauro, R., & Montella, R. (2012). SOLE: Linking research papers with science objects. In P. Groth & J. Frew (Eds.), Provenance and annotation of data and processes, Lecture Notes in Computer Sciences 7525 (pp. 203–208). Springer.

Piwowar, H. A., Vision, T. J., & Whitlock, M. C. (2011). Data archiving is a good investment. Nature, 473, 285–285. doi: 10.1038/473285a.

Ramakrishnan, C., Patnia, A., Hovy, E., & Burns, G. A. (2012). Layout-aware text extraction from full-text PDF of scientific articles. Source Code for Biology and Medicine, 7(1), 7. doi: 10.1186/1751-0473-7-7. Retrieved May 7, 2013, from http://www.ncbi. nlm.nih.gov/pmc/articles/PMC3441580/pdf/1751-0473-7-7.pdf.

Reavley, N. J., Mackinnon, A. J., Morgan, A. J., Alvarez-Jimenez, M., Hetrick, S. E., Killackey, E., et al. (2012). Quality of information sources about mental disorders: a comparison of Wikipedia with centrally controlled web and printed sources. Psychological Medicine, 42(8), 1753. doi:10.1017/S003329171100287X.

Rebholz-Schuhmann, D., Arregui, M., Gaudan, S., Kirsch, H., & Jimeno, A. (2008). Text processing through Web services: calling Whatizit. Bioinformatics, 24(2), 296–298. doi: 10.1093/bioinformatics/btm557. Retrieved May 7, 2013, from http://bioinformatics.oxfordjournals.org/content/24/2/296.full.pdf+html.

Reilly, S., Schallier, W., Schrimpf, S., Smit, E., & Wilkinson, M. (2011). Report on integration of data and publications. Opportunities for Data Exchange (ODE). Retrieved May 7, 2013, from http://www.libereurope.eu/sites/default/files/ODE-ReportOnIn tegrationOfDataAndPublication.pdf.

Shah, P. K., Perez-Iratxeta, C., Bork, P., & Andrade, M. A. (2003). Information extraction from full text scientific articles: Where are the keywords? BMC Bioinformatics, 4(5), 20. Retrieved May 7, 2013, from http://www.biomedcentral. com/content/pdf/1471-2105-4-20.pdf.

Shotton, D., Portwin, K., Klyne, G., & Miles, A. (2009). Adventures in semantic publishing: Exemplar semantic enhancements of a research article. PLoS Computational Biology, 5(4), e1000361. doi: 10.1371/journal.pcbi.1000361. Retrieved May 7, 2013, from http://www.ploscompbiol.org/article/ info%3Adoi%2F10.1371%2Fjournal.pcbi.1000361.

Siciarek, J., & Wiszniewski, B. (2011). IODA – an interactive open document architecture. Procedia Computer Science, 4, 668–677. doi: 10.1016/j.procs.2011.04.070. Retrieved May 7, 2013, from http://ac.els-cdn.com/S1877050911001281/1s2.0-S1877050911001281-main.pdf?_tid=34df85d8-b805-11e2-8a8300000aacb35d&acdnat=1368034507_bf84eb1f0a5f0bb1c9bbf0e388806439.

Van den Heuvel, H., van Horik, R., Sanders, E., Scagliola, S., & Witkamp, P. (2010). The VeteranTapes: Research corpus, fragment processing tool, and enhanced publications for the e-Humanities. In Proceedings of the 7th International Conference on Language Resources and Evaluation (LREC) (pp. 2687–2692). Retrieved May 7, 2013, from http://repository.ubn.ru.nl/bitstream/2066/85921/1/85921.pdf.

Van Gorp, P., & Mazanek, S. (2011). SHARE: a web portal for creating and sharing executable research papers. Procedia Computer Science, 4, 589–597. doi: 10.1016/j.procs.2011.04.062. Retrieved May 7, 2013, from http://ac.els-cdn.com/ S1877050911001207/1-s2.0-S1877050911001207-main.pdf?_tid=62c13b9c-b80811e2-9311-00000aacb362&acdnat=1368035873_1c1a42f1ca58d6ae2f5470ae66e5b 21f.

White, H. C., Carrier, C., Thompson, A., Greenberg, J., & Scherle, R. (2008). The Dryad data repository: a Singapore framework metadata architecture in a DSpace environment. In Proceedings of the 2008 International Conference on Dublin Core and Metadata Applications (DCMI ’08) (pp. 157–162). Dublin Core Metadata Initiative. Retrieved May 7, 2013, from http://dcpapers.dublincore.org/pubs/article/ view/928.

Woutersen-Windhouwer Brandsma, R., Verhaar, P., Hogenaar, A., Hoogerwerf, M., Doorenbosch, P., Derr, E., Ludwig, J., Schmidt, B., & Sierman, B. (2009). Enhanced Publications: Linking Publications and Research Data in Digital Repositories. Amsterdam: Amsterdam University Press. Retrieved December 17, 2013, from http://dare.uva. nl/document/150723.

Yook, K., Harris, T. W., Bieri, T., Cabunoc, A., Chan, J., Chen, W. J., et al. (2012). WormBase 2012: more genomes, more data, new website. Nucleic Acids Research, 40(D1), D735–D741. doi: 10.1093/nar/gkr954. Retrieved May 7, 2013, from http:// nar.oxfordjournals.org/content/40/D1/D735.full.pdf+html.