Have a personal or library account? Click to login
Curating Scientific Information in Knowledge Infrastructures Cover

Curating Scientific Information in Knowledge Infrastructures

Open Access
|Sep 2018

References

  1. 1Aalto, P, Hämeri, K, Becker, E, Weber, R, Salm, J, Mäkelä, JM, Hoell, C, O’dowd, CD, Hansson, H-C, Väkevä, M, Koponen, IK, Buzorius, G and Kulmala, M. 2001. Physical characterization of aerosol particles during nucleation events. Tellus B: Chemical and Physical Meteorology, 53(4): 344358. DOI: 10.3402/tellusb.v53i4.17127
  2. 2Aamodt, A and Nygård, M. 1995. Different roles and mutual dependencies of data, information, and knowledge – An AI perspective on their integration. Data & Knowledge Engineering, 16(3): 191222. DOI: 10.1016/0169-023X(95)00017-M
  3. 3Bandrowski, A, Brinkman, R, Brochhausen, M, Brush, MH, Bug, B, Chibucos, MC, Clancy, K, Courtot, M, Derom, D, Dumontier, M, Fan, L, Fostel, J, Fragoso, G, Gibson, F, Gonzalez-Beltran, A, Haendel, MA, He, Y, Heiskanen, M, Hernandez-Boussard, T, Jensen, M, Lin, Y, Lister, AL, Lord, P, Malone, J, Manduchi, E, McGee, M, Morrison, N, Overton, JA, Parkinson, H, Peters, B, Rocca-Serra, P, Ruttenberg, A, Sansone, S-A, Scheuermann, RH, Schober, D, Smith, B, Soldatova, LN, Stoeckert, CJ, Taylor, CF, Torniai, C, Turner, JA, Vita, R, Whetzel, PL and Zheng, J. 2016. The Ontology for Biomedical Investigations. PLOS ONE, 11(4). e0154556. DOI: 10.1371/journal.pone.0154556
  4. 4Barwise, J and Perry, J. 1981. Situations and Attitudes. The Journal of Philosophy, 78(11): 668691. DOI: 10.2307/2026578
  5. 5Beaulieu, SE, Fox, PA, Di Stefano, M, Maffei, A, West, P, Hare, JA and Fogarty, M. 2017. Toward cyberinfrastructure to facilitate collaboration and reproducibility for marine integrated ecosystem assessments. Earth Science Informatics, 10(1): 8597. DOI: 10.1007/s12145-016-0280-4
  6. 6Borgman, CL. 2007. Scholarship in the Digital Age: Information, Infrastructure, and the Internet. MIT University Press.
  7. 7Borgman, CL, Darch, PT, Sands, AE, Pasquetto, IV, Golshan, MS, Wallis, JC and Traweek, S. 2015. Knowledge infrastructures in science: data, diversity, and digital libraries. International Journal on Digital Libraries 16(3). 207227. DOI: 10.1007/s00799-015-0157-z
  8. 8Brinckman, A, Chard, K, Gaffney, N, Hategan, M, Jones, MB, Kowalik, K, Kulasekaran, S, Ludäscher, B, Mecum, BD, Nabrzyski, J, Stodden, V, Taylor, IJ, Turk, MJ and Turner, K. 2018. Computing environments for reproducibility: Capturing the “Whole Tale”. Future Generation Computer Systems. DOI: 10.1016/j.future.2017.12.029
  9. 9Buttigieg, PL, Pafilis, E, Lewis, SE, Schildhauer, MP, Walls, RL and Mungall, CJ. 2016. The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation. Journal of Biomedical Semantics, 7(1): 57. DOI: 10.1186/s13326-016-0097-6
  10. 10Candela, L, Castelli, D and Pagano, P. 2013. Virtual Research Environments: An Overview and a Research Agenda. Data Science Journal, 12(0): GRDI75GRDI81. DOI: 10.2481/dsj.grdi-013
  11. 11Cohen-Boulakia, S, Belhajjame, K, Collin, O, Chopard, J, Froidevaux, C, Gaignard, A, Hinsen, K, Larmande, P, Le Bras, Y, Lemoine, F, Mareuil, F, Ménager, H, Pradal, C and Blanchet, C. 2017. Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities. Future Generation Computer Systems, 75: 284298. DOI: 10.1016/j.future.2017.01.012
  12. 12Dal Maso, M, Kulmala, M, Riipinen, I, Wagner, R, Hussein, T, Aalto, PP and Lehtinen, KEJ. 2005. Formation and growth of fresh atmospheric aerosols: Eight years of aerosol size distribution data from SMEAR II, Hyytiälä, Finland. Boreal Environment Research, 10(5): 323336.
  13. 13Devlin, K. 1991. Logic and Information. Cambridge University Press.
  14. 14Diepenbroek, M, Grobe, H, Reinke, M, Schindler, U, Schlitzer, R, Sieger, R and Wefer, G. 2002. PANGAEA—an information system for environmental sciences. Computers & Geosciences, 28(10): 12011210. Shareware and freeware in the Geosciences II. A special issue in honour of John Butler. DOI: 10.1016/S0098-3004(02)00039-0
  15. 15Edwards, PN. 2010. A Vast Machine: Computer Models, Climate Data, and the Politics of Global Warming. MIT Press.
  16. 16Edwards, PN, Jackson, SJ, Chalmers, MK, Bowker, GC, Borgman, CL, Ribes, D, Burton, M and Calvert, S. 2013. Knowledge Infrastructures: Intellectual Frameworks and Research Challenges. Tech. rep. Ann Arbor, MI: University of Michigan.
  17. 17Floridi, L. 2010. Information—A Very Short Introduction. Oxford University Press. DOI: 10.1093/actrade/9780199551378.001.0001
  18. 18Floridi, L. 2011. The Philosophy of Information. Oxford University Press. DOI: 10.1093/acprof:oso/9780199232383.001.0001
  19. 19Gil, Y, David, CH, Demir, I, Essawy, BT, Fulweiler, RW, Goodall, JL, Karlstrom, L, Lee, H, Mills, HJ, Oh, J-H, Pierce, SA, Pope, A, Tzeng, MW, Villamizar, SR and Yu, X. 2016. Toward the Geoscience Paper of the Future: Best practices for documenting and sharing research from data to software to provenance. Earth and Space Science, 3(10): 388415. DOI: 10.1002/2015EA000136
  20. 20Goor, E, Dries, J, Daems, D, Paepen, M, Niro, F, Goryl, P, Mougnaud, P and Vecchia, AD. 2016. PROBA-V Mission Exploitation Platform. Remote Sensing, 8(7). DOI: 10.3390/rs8070564
  21. 21Hamed, A, Joutsensaari, J, Mikkonen, S, Sogacheva, L, Dal Maso, M, Kulmala, M, Cavalli, F, Fuzzi, S, Facchini, MC, Decesari, S, Mircea, M, Lehtinen, KEJ and Laaksonen, A. 2007. Nucleation and growth of new particles in Po Valley, Italy. Atmospheric Chemistry and Physics, 7(2): 355376. DOI: 10.5194/acp-7-355-2007
  22. 22Hari, P and Kulmala, M. 2005. Station for Measuring Ecosystem-Atmosphere Relations (SMEAR II). Boreal Environment Research, 10(5): 315322.
  23. 23Harris, S and Seaborne, A. 2013. SPARQL 1.1 Query Language. Recommendation W3C.
  24. 24Heiler, S. 1995. Semantic Interoperability. ACM Comput. Surv, 27(2): 271273. DOI: 10.1145/210376.210392
  25. 25Hellström, M, Vermeulen, A, Mirzov, O, Sabbatini, S, Vitale, D, Papale, D, Tarniewicz, J, Hazan, L, Rivier, L, Jones, SD, Pfeil, B and Johannessen, T. 2016. Near Real Time Data Processing In ICOS RI. In 2nd international workshop on interoperable infrastructures for interdisciplinary big data sciences (it4ris 16) in the context of ieee real-time system symposium (rtss). DOI: 10.5281/zenodo.204817
  26. 26Hitzler, P, Krötzsch, M, Parsia, B, Patel-Schneider, PF and Rudolph, S. 2012. OWL 2 Web Ontology Language Primer (Second Edition). Recommendation W3C.
  27. 27Jennings, NR, Sycara, K and Michael, W. 1998. A Roadmap of Agent Research and Development. Autonomous Agents and Multi-Agent Systems, 1(1): 738. DOI: 10.1023/A:1010090405266
  28. 28Junninen, H, Lauri, A, Keronen, P and Aalto, P. 2009. Smart-SMEAR: On-line data exploration and visualization tool for SMEAR stations. Boreal Environment Research, 14(4): 447457.
  29. 29Karasti, H, Millerand, F, Hine, CM and Bowker, GC. (Eds.) 2016. Special issue on knowledge infrastructures. Science & Technology Studies.
  30. 30Keller, M, Schimel, DS, Hargrove, WW and Hoffman, FM. 2008. A continental strategy for the National Ecological Observatory Network. Frontiers in Ecology and the Environment, 6(5): 282284. DOI: 10.1890/1540-9295(2008)6[282:ACSFTN]2.0.CO;2
  31. 31Kissling, WD, Ahumada, JA, Bowser, A, Fernandez, M, Fernández, N, García, EA, Guralnick, RP, Isaac, NJP, Kelling, S, Los, W, McRae, L, Mihoub, J-B, Obst, M, Santamaria, M, Skidmore, AK, Williams, KJ, Agosti, D, Amariles, D, Arvanitidis, C, Bastin, L, De Leo, F, Egloff, W, Elith, J, Hobern, D, Martin, D, Pereira, HM, Pesole, G, Peterseil, J, Saarenmaa, H, Schigel, D, Schmeller, DS, Segata, N, Turak, E, Uhlir, PF, Wee, B and Hardisty, AR. 2017. Building essential biodiversity variables (EBVs) of species distribution and abundance at a global scale. Biological Reviews, 93(1). DOI: 10.1111/brv.12359
  32. 32Kluyver, T, Ragan-Kelley, B, Pérez, F, Granger, B, Bussonnier, M, Frederic, J, Kelley, K, Hamrick, J, Grout, J, Corlay, S, Ivanov, P, Avila, D, Abdalla, S, Willing, C and Jupyter development team. 2016. Jupyter Notebooks—a publishing format for reproducible computational workflows. In: Loizides, F and Schmidt, B (Eds.), Positioning and power in academic publishing: Players, agents and agendas, 8790. IOS Press. DOI: 10.3233/978-1-61499-649-1-87
  33. 33Kulmala, M, Vehkamäki, H, Petäjä, T, Dal Maso, M, Lauri, A, Kerminen, VM, Birmili, W and McMurry, PH. 2004. Formation and growth rates of ultrafine atmospheric particles: A review of observations. Journal of Aerosol Science, 35(2): 143176. DOI: 10.1016/j.jaerosci.2003.10.003
  34. 34Lebo, T, Sahoo, S and McGuinness, D. 2013. PROV-O: The PROV Ontology. Recommendation W3C.
  35. 35Lindstrom, E, Gunn, J, Fischer, A, McCurdy, A and Glover, LK. 2012. A Framework for Ocean Observing. Task Team for an Integrated Framework for Sustained Ocean Observing IOC/INF-1284 UNESCO.
  36. 36Mitchell, TM. 1997. Machine Learning. New York, NY, USA: McGraw-Hill, Inc. 1st edn.
  37. 37Murta, L, Braganholo, V, Chirigati, F, Koop, D and Freire, J. 2015. noWorkflow: Capturing and Analyzing Provenance of Scripts. In: Ludäscher, B and Plale, B (eds.), Provenance and annotation of data and processes, 7183. Cham: Springer International Publishing. DOI: 10.1007/978-3-319-16462-5_6
  38. 38Nieva de la Hidalga, A, Magagna, B, Stocker, M, Hardisty, A, Martin, P, Zhao, Z, Atkinson, M and Jeffery, K. 2017. The ENVRI Reference Model (ENVRI RM) version 2.2, 30th October 2017. DOI: 10.5281/zenodo.1050349
  39. 39Pearlman, J, Schaap, D and Glaves, H. 2016. Ocean Data Interoperability Platform (ODIP): addressing key challenges for marine data management on a global scale. In: Oceans 2016 mts/ieee monterey, 17.
  40. 40Pimentel, J, Nicolaci, F, Braganholo, V, Murta, L and Freire, J. 2015. Collecting and Analyzing Provenance on Interactive Notebooks: When IPython Meets noWorkflow. In Proceedings of the 7th usenix conference on theory and practice of provenance TaPP’, 15: 1010. Berkeley, CA, USA: USENIX Association.
  41. 41Roemmich, D, Johnson, G, Riser, S, Davis, R, Gilson, J, Owens, WB, Garzoli, S, Schmid, C and Ignaszewski, M. 2009. The Argo Program: Observing the Global Oceans with Profiling Floats. Oceanography, 22(2): 3443. DOI: 10.5670/oceanog.2009.36
  42. 42Schreiber, G and Raimond, Y. 2014. RDF 1.1 Primer. Working Group Note W3C.
  43. 43Schubert, L and Jeffery, K. 2015. New Software Engineering Requirements in Clouds and Large-Scale Systems. IEEE Cloud Computing, 2(1): 4858. DOI: 10.1109/MCC.2015.13
  44. 44Stocker, M. 2015. Situation Awareness in Environmental Monitoring. University of Eastern Finland dissertation.
  45. 45Stocker, M. 2017. Terrestrial Ecosystem Research Infrastructures: Challenges and Opportunities. chap. Advancing the Software Systems of Environmental Knowledge Infrastructures, 399423. Taylor & Francis Group, CRC Press. DOI: 10.1201/9781315368252-16
  46. 46Stocker, M, Baranizadeh, E, Hamed, A, Rönkkö, M, Virtanen, A, Laaksonen, A, Portin, H, Komppula, M and Kolehmainen, M. 2013. Acquisition and Representation of Knowledge for Atmospheric New Particle Formation. In: Hřebíček, J, Schimak, G, Kubásek, M and Rizzoli, AE (eds.), Environmental software systems. Fostering information sharing, vol. 413 IFIP Advances in Information and Communication Technology, 98108. Berlin, Heidelberg: Springer. DOI: 10.1007/978-3-642-41151-9_10
  47. 47Stocker, M, Baranizadeh, E, Portin, H, Komppula, M, Rönkkö, M, Hamed, A, Virtanen, A, Lehtinen, K, Laaksonen, A and Kolehmainen, M. 2014. Representing situational knowledge acquired from sensor data for atmospheric phenomena. Environmental Modelling & Software, 58: 2747. DOI: 10.1016/j.envsoft.2014.04.006
  48. 48Stocker, M, Rönkkö, M and Kolehmainen, M. 2015. Knowledge-based environmental research infrastructure: moving beyond data. Earth Science Informatics, 9(1): 4765. DOI: 10.1007/s12145-015-0230-6
  49. 49Von Neumann, J. 1993. First draft of a report on the EDVAC. IEEE Annals of the History of Computing, 15(4): 2775. DOI: 10.1109/85.238389
  50. 50Vossepoel, S and Murray, MS. 2016. Advancing Knowledge for a Changing North: Open, Interoperable, and Collaborative Pan-Arctic Data and Information Management at the Arctic Institute of North America. In: Scidatacon 2016—advancing the frontiers of data in research, Ubiquity Press.
  51. 51Zaidan, MA, Haapsilta, V, Relan, R, Junninen, H, Aalto, P, Canova, FF, Laurson, L and Foster, A. 2017. Neural network classifier on time series features for predicting atmospheric particle formation days. In: Halonen, R, Nikandrova, A, Kontkanen, J, Enroth, J and Vehkamäki, H (eds.), The 20th international conference on nucleation and atmospheric aerosols (Report Series in Aerosol Science 200), 687690.
  52. 52Zins, C. 2007. Conceptual approaches for defining data, information, and knowledge. Journal of the American Society for Information Science and Technology, 58(4): 479493. DOI: 10.1002/asi.20508
Language: English
Submitted on: May 31, 2018
Accepted on: Aug 31, 2018
Published on: Sep 20, 2018
Published by: Ubiquity Press
In partnership with: Paradigm Publishing Services
Publication frequency: 1 issue per year

© 2018 Markus Stocker, Pauli Paasonen, Markus Fiebig, Martha A. Zaidan, Alex Hardisty, published by Ubiquity Press
This work is licensed under the Creative Commons Attribution 4.0 License.