Mooshka: A system for the management of multidimensional gene expression data in situ

Information Systems

Volumn 28, Issue 4, 2003, Pages 269-285

  Pisarev, Andrei ^a   Poustelnikova, Ekaterina ^a   Samsonova, Maria ^a   Baumann, Peter ^b  

^a PETER THE GREAT ST PETERSBURG POLYTECHNIC UNIVERSITY   (Russian Federation)

^b Active Knowledge GmbH   (Germany)

Author keywords

Data modelling; Drosophila; Functional genomics; Gene expression in situ; Multidimensional data; Multidimensional databases

Indexed keywords

COMPUTER SIMULATION; DATA REDUCTION; GENES; INFORMATION RETRIEVAL; INFORMATION TECHNOLOGY; ONLINE SYSTEMS; ORDINARY DIFFERENTIAL EQUATIONS; QUERY LANGUAGES;

FUNCTIONAL GENOMICS; GENE EXPRESSION DATA; MULTIDIMENSIONAL DATABASES;

DATABASE SYSTEMS;

EID: 0038298865     PISSN: 03064379     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0306-4379(02)00074-1     Document Type: Article

References (20)

1. M. Ringwald, M.E. Mangan, J.T. Eppig, J.A. Kadin, J.E. Richardson, Gxd: a gene expression database for the laboratory mouse, Nucleic Acids Res. 27 (1999) 106-112.
2. M. Samsonova, S. Surkova, V. Serov, K. Sobolev, R. Shulakov, A. Veremyev, E. Pustel'nikova, L. Judenich, Digital library AbOvo, containing information on genetic networks, controlling development, in: Proceedings of the First All-Russian Conference Digital libraries: Perspective Methods and Technologies, Electronic Collections, St. Petersburg, 19-22 October 1999
3. N. Pollet, H.A. Schmidt, V. Gawantka, M. Vingron, C. Niehrs, Axeldb: a Xenopus Patabase focusing on gene expression, Nucleic Acids Res. 28 (2000) 139-140.
4. M. Akam, The molecular basis for metameric pattern in the Drosophila embryo, Development 101 (1987) 1-22.
5. P.W. Ingham, The molecular genetics of embryonic pattern formation in Drosophila, Nature 335 (1988) 25-34.
6. D. Kosman, J. Reinitz, D.H. Sharp, Automated assay of gene expression at cellular resolution, in: Proceedings of the 1998 Pacific Symposium on Biocomputing, World Scientific, Singapore, 1998, pp. 6-17.
7. D. Kosman, S. Small, J. Reinitz, Rapid preparation of a panel of polyclonal antibodies to Drosophila segmentation proteins, Dev. Genes Evol. 208 (1998) 290-294.
8. E. Myasnikova, D. Kosman, J. Reinitz, M. Samsonova, Spatio-temporal registration of the expression patterns of Drosophila segmentation genes, in: Seventh International Conference on Intelligent Systems for Molecular Biology, AAAI Press, Menlo Park, CA, 1999, pp. 195-201.
9. K. Kozlov, E. Myasnikova, M. Samsonova, J. Reinitz, D. Kosman, Method for spatial registration of the expression patterns of Drosophila segmentation genes using wavelets, Comput. Technol. 5 (2000) 112-119.
10. E. Myasnikova, A. Samsonova, K. Kozlov, M. Samsonova, J. Reinitz, Registration of the expression patterns of Drosophila segmentation genes by two independent methods, Bioinformatics 17 (2001) 3-12.
11. J. Reinitz, E. Mjolsness, D.H. Sharp, Cooperative control of positional information in Drosophila by bicoid and maternal hunchback, J. Exp. Zool. 49 (1995) 47-56.
12. J. Reinitz, D.H. Sharp, Mechanism of formation of eve stripes, Mech. Dev. 49 (1995) 133-158.
13. D. Sharp, J. Reinitz, Prediction of mutant expression patterns using gene circuits, BioSystems 47 (1998) 79-90.
14. J. Reinitz, D. Kosman, C.E. Vanario-Alonso, D. Sharp, Stripe forming architecture of the gap gene system, Dev. Genetics 23 (1998) 11-27.
15. http://www.khoral.com.
16. P. Furtado, R. Ritsch, N. Widmann, P. Zoller, P. Baumann, Object-oriented design of a database engine for multidimensional discrete data, in: Proceedings of the OOIS'97 Conference, Brisbane, Australia, 1997, pp. 178-186.
17. P. Baumann, A database array algebra for spatio-temporal data and beyond, in: Proceedings of the Next Generation Information Technology and Systems NGITS'99, Zikhron Yaakov, Israel, 1999, pp. 76-93.
18. R. Ritsch, Optimization and evaluation of array queries in database management systems, Ph.D. Thesis, Technische Universitat Munchen, 1999.
19. P. Furtado, P. Baumann, Storage of multidimensional arrays based on arbitrary tiling, in: Proceedings of the ICDE '99, Sydney, Australia, 1999, pp, 480-489.
20. N. Widmann, Efficient operation execution on multidimensional array data, Ph.D. Thesis, Technische Universitat Munchen, 2000.