Abstract
Bio-imaging toolkit is an application for biological imaging community that will bring in the latest efforts in indexing, searching, navigation, discovery, analysis and annotation for both biological image and video collections. This paper discusses both metadata-based and content-based representation, indexing, querying, navigation, discovery, and retrieval, as well as video segmentation and image/video annotations. It also discusses image retrieval by texture similarity, shape similarity, color similarity, and spatio-temporal relationships for the bio-imaging database. A highly interactive multimedia information retrieval system has been developed which is based on Service Oriented Architecture (SOA) that relies on the REST based web-service model to create efficient web components. Application designed is a light weight container application that can be deployed easily without any expertise and easy to understand for novice users.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Godil, A.: ViSA: Video Segmentation and Annotation. In: UPA 2004 conference, Minneapolis, MN, June 6-11 (2004)
Bargeron, D., Gupta, A., Sanocki, E., Grudin, J.: Annotations for streaming video on the web: System Design and Usage Studies. In: Proceeding of WWW8, pp. 61–75 (1999)
Swedlow, J.R., Goldberg, I., Brauner, E., Sorger, P.K.: Informatics and Quantitative Analysis in Biological Imaging. Science 300 (April 4, 2003)
Sorger, P., Rines, D., Goldberg, I., Swedlow, J., Hughes, B.: The Open Microscopy Environment
Martone, M.E., Tran, J., Wong, W.W., Sargis, J., Fong, L., Larson, S., Lamont, S.P., Gupta, A., Ellisman, M.H.: Cell Centered Database, The National Center for Microscopy and Imaging Research (NCMIR) at the University of California San Diego
Martone, M.E., Tran, J., Wong, W.W., Sargis, J., Fong, L., Larson, S., Lamont, S.P., Gupta, A., Ellisman, M.H.: The Cell Centered Database project: An update on building community resources for managing and sharing 3D imaging data. J. Struct. Biol. (October 16, 2007)
Martone, M.E., Sargis, J., Tran, J., Wong, W.W., Jiles, H., Mangir, C.: Database resources for cellular electron microscopy. Methods Cell Biol. 79, 799–822 (2007); PMID: 17327184
Martone, M.E., Gupta, A., Wong, M., Qian, X., Sosinsky, G., Ludaescher, B., Ellisman, M.H.: A cell centered database for electron tomographic data. J. Struct. Biol. 138, 145–155 (2002)
DCMI 1998. Dublin Core Metadata Element Set, version 1.0: Reference description. Retrieved January 10 (2007)
Hunter, J., Newmarch, J.: An Indexing, Browsing, Search and Retrieval System for Audiovisual Libraries. In: Abiteboul, S., Vercoustre, A.-M. (eds.) ECDL 1999. LNCS, vol. 1696, p. 76. Springer, Heidelberg (1999)
Hunter, J.: Adding Multimedia to the Semantic Web: Building an MPEG-7 Ontology. In: Proc. Int’l Semantic Web Working Symp. (SWWS 2001), pp. 261–283 (2001)
Martinez, J.: Overview of the MPEG-7 Standard, MPEG Document: ISO/IEC JTC1/SC29/WG11 N4509 Pattaya (December 2001)
ISO/IEC 15938-5 FDIS Information Technology - Multimedia Content Description Interface - Part 5: Multimedia Description Schemes, MPEG Document: ISO/IEC JTC1/SC29/WG11 Document W4242, Sydney (July 2001)
Prata Jr., A., Rusch, W.V.T.: Algorithm for computation of Zernike polynomials expansion coefficients. Appl. Opt. 28(4), 749–754 (1989)
Chiu, P., Girgensohn, A., Polak, W., Rieffel, E., Wilcox, L.: A Genetic Algorithm for Video Segmentation and Summarization. In: Proceedings of IEEE International Conference on Multimedia and Expo, vol. III, pp. 1329–1332 (2000)
Haralick, R.M., Shanmugam, K., Dinstein, I.: Textural Features for Image Classification. IEEE Transactions on Systems, Man, and Cybernetics (1979)
Manjunath, B.S., Ma, W.Y.: Texture features for browsing and retrieval of large image data. IEEE Transactions on Pattern Analysis and Machine Intelligence (Special Issue on Digital Libraries) 18(8), 837–842 (1996)
Perona, P., Malik, J.: Scale-Space and Edge Detection Using Anisotropic Diffusion. IEEE Transactions on Pattern Analysis and Machine Intelligence 12(7), 629–639 (1990)
Otsu, N.: A Threshold Selection Method from Gray-Level Histograms. IEEE Transactions on Systems, Man and Cybernetics 9(1), 62–66 (January 19)
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2008 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Godil, A., Cheung, B., Wagan, A., Li, X. (2008). Bio-imaging Toolkit for Indexing, Searching, Navigation, Discovery and Annotation. In: Bebis, G., et al. Advances in Visual Computing. ISVC 2008. Lecture Notes in Computer Science, vol 5359. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-89646-3_91
Download citation
DOI: https://doi.org/10.1007/978-3-540-89646-3_91
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-89645-6
Online ISBN: 978-3-540-89646-3
eBook Packages: Computer ScienceComputer Science (R0)