Computational hypertext in biological modelling

ABSTRACT

This paper describes an application of hypertext to a biological research problem. An individual energetics model for Cassin's Sparrow was developed in which the computations and intellectual activities associated with each phase of the research were performed within an integrated hypertext environment. The study demonstrates the effectiveness of computational hypertext in meeting the personal information management requirements of individual researchers in the natural sciences and its ability to speed the dissemination of research results within a community of scholars. Most important, the study shows how hypertext can be “phased in” to support traditional scholarship in disciplines that are otherwise slow to respond to emerging computer technologies.

REFERENCES

• Aksc88: Robert M. Akscyn , Donald L. McCracken , Elise A. Yoder, KMS: a distributed hypermedia system for managing knowledge in organizations, Communications of the ACM, v.31 n.7, p.820-835, July 1988 [doi>10.1145/48511.48513]
• Bend87: S. Bendifallah , W. Scacchi, Understanding software maintenance work, IEEE Transactions on Software Engineering, v.13 n.3, p.311-323, March 1987 [doi>10.1109/TSE.1987.233162]
• Bush45: Bush, V. 1945. As We May Think. Atlantic Monthly, 176, (July), 101-108.
• Conk87: Jeff Conklin, Hypertext: an introduction and survey, Computer, v.20 n.9, p.17-41, Sept. 1987 [doi>10.1109/MC.1987.1663693]
• Cran87: Gregory Crane, From the old to the new: intergrating hypertext into traditional scholarship, Proceeding of the ACM conference on Hypertext, p.51-55, November 1987, Chapel Hill, North Carolina, United States [doi>10.1145/317426.317432]
• Deli86a: Norman M. Delisle , Mayer D. Schwartz, Contexts—a partitioning concept for hypertext, ACM Transactions on Information Systems (TOIS), v.5 n.2, p.168-186, April 1987 [doi>10.1145/27636.27639]
• Deli86b: Norman Delisle , Mayer Schwartz, Neptune: a hypertext system for CAD applications, Proceedings of the 1986 ACM SIGMOD international conference on Management of data, p.132-143, May 28-30, 1986, Washington, D.C., United States
• Enge62: Engelbart, D. 1962. Augmenting human intellect: A conceptual framework. SRI Technical Report AFOSR-3223, Contract AF 49(638)- 1024, (October).
• Enge84a: Engelbart, D. C. 1984. Collaboration support provisions in AUGMENT. Proceedings of the 1984 AFIPS Office Automation Conference, OAC '84 Digest, (Los Angeles, Calif., February), pp. 51-58.
• Enge84b: Engelbart, D. C. 1984. Authorship provisions in AUGMENT. Proceedings of the 1984 COMPCON Conference, COMPCON "84 Digest, (San Francisco, Calif., February), pp. 465-472.
• Fris88: Mark,E. Frisse, Searching for information in a hypertext medical handbook, Communications of the ACM, v.31 n.7, p.880-886, July 1988 [doi>10.1145/48511.48518]
• Garr86: L. Nancy Garrett , Karen E. Smith , Norman Meyrowitz, Intermedia: issues, strategies, and tactics in the design of a hypermedia document system, Proceedings of the 1986 ACM conference on Computer-supported cooperative work, December 03-05, 1986, Austin, Texas [doi>10.1145/637069.637090]
• Gorr88: G. Anthony Gorry , Andrew M. Burger , R. Jesse Chaney , Kevin B. Long , Christina M. Tausk, Computer support for biomedical work groups, Proceedings of the 1988 ACM conference on Computer-supported cooperative work, p.39-51, September 26-28, 1988, Portland, Oregon, United States [doi>10.1145/62266.62270]
• Gran86: Grant, W. E. 1986. Systems Analysis and Simulation in Wildlife and Fisheries Sciences. john Wiley and Sons, New York.
• Hala88: Frank,G. Halasz, Reflections on NoteCards: seven issues for the next generation of hypermedia systems, Communications of the ACM, v.31 n.7, p.836-852, July 1988 [doi>10.1145/48511.48514]
• Kuhn70: Kuhn, T. S. 1970. The Structure of Scientific Revolutions, 2nd ed. University of Chicago Press, Chicago.
• Legg88: Leggett, J., Schnase, J. L, and Kacmar, C. J. 1988. Working definitions of hypertext. Department of Computer Science Technical Report No. TAMU 88-020, Texas A&M University, College Station, Tx.
• Morr86: James H. Morris , Mahadev Satyanarayanan , Michael H. Conner , John H. Howard , David S. Rosenthal , F. Donelson Smith, Andrew: a distributed personal computing environment, Communications of the ACM, v.29 n.3, p.184-201, March 1986 [doi>10.1145/5666.5671]
• Nels65: T. H. Nelson, Complex information processing: a file structure for the complex, the changing and the indeterminate, Proceedings of the 1965 20th national conference, p.84-100, August 24-26, 1965, Cleveland, Ohio, United States [doi>10.1145/800197.806036]
• Nels67: Nelson, T. H. 1967. Hypertext notes (Note 6). Unpublished manuscript.
• Nels87: Nelson, T. H. 1987. Literary Machines, F~tion 87.1. Available from the Distributors, 702 South Michigan, South Bend, IN 46618.
• Rose88: Jonathan Rosenberg , Mark S. Sherman , Ann Marks , Frank Giufrida, Translating among processable multi-media document formats using ODA, Proceedings of the ACM conference on Document processing systems, p.61-70, December 05-08, 1988, Santa Fe, New Mexico, United States [doi>10.1145/62506.62519]
• Schn88: Schnase, J. L., Leggett, J., Kacmar, C. J., and Boyle, C. 1988. A comparison of hypertext systems. Department of Computer Science Technical Report No. TAMU 88-017, Texas A&M University, College Station, Tx.
• Smit86: Smith, J. B., Weiss, S., Ferguson, G., Bolter, J., Lansman, M., and Beard, D. 1986. WE: A Writing environment for professionals. Department of Computer Science Technical Report No. TR86-025, University of North Carolina, Chapel Hill, N.C.
• Thom85: Thomas, R. H., Forsdick, H. C., Crowley, T. R., Robertson, G. G., Shaaf, R. W., Tomlinson, T. S., Travers, V. M., 1985. Diamond: a multimedia message system built upon a distributed architecture, Computer, 18, 12, (December), 65-78.
• Trigg83: Randall Hagner Trigg, A network-based approach to text handling for the on-line scientific community, 1983
• Trigg86: Randall H. Trigg , Lucy A. Suchman , Frank G. Halasz, Supporting collaboration in notecards, Proceedings of the 1986 ACM conference on Computer-supported cooperative work, December 03-05, 1986, Austin, Texas [doi>10.1145/637069.637089]
• Walk88: Janet H. Walker, Supporting Document Development with Concordia, Computer, v.21 n.1, p.48-59, January 1988 [doi>10.1109/2.222116]
• Wolf77: Wolf, L. L. 1977. Species relationships in the avian genus Aimoplu'la. Omithologicah Union Monographs No. 23.
• Yank87: Yankelovich, N., Landow, G., and Heywood, P. 1987. Designing hypermedia "ideabases" - The Intermedia experience. Brown University IRIS Technical Report 87-4, Providence, R.I.
• Yank88: Nichole Yankelovich , Bernard J. Haan , Norman K. Meyrowitz , Steven M. Drucker, Intermedia: The Concept and the Construction of a Seamless Information Environment, Computer, v.21 n.1, p.81-83, 90-96, January 1988 [doi>10.1109/2.222120]
• Yode89: E. Yoder , R. Akscyn , D. McCracken, Collaboration in KMS, a shared hypermedia system, Proceedings of the SIGCHI conference on Human factors in computing systems: Wings for the mind, p.37-42, March 1989

INDEX TERMS

Primary Classification:
  C. Computer Systems Organization

Additional Classification:
  H. Information Systems
  H.3 INFORMATION STORAGE AND RETRIEVAL

  J. Computer Applications
  J.3 LIFE AND MEDICAL SCIENCES
      Subjects: Biology and genetics

General Terms:
Design, Performance