Conceptual representation of gene expression processes

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 6581 LNAI, Issue , 2011, Pages 79-100

  Wollbold, Johannes ^a   Huber, René ^b,c   Kinne, Raimund ^b   Wolff, Karl Erich ^d  

^a Steinbeis Transfer Center for Proteome Analysis   (Germany)

^b JENA UNIVERSITY HOSPITAL   (Germany)

^c HANNOVER MEDICAL SCHOOL   (Germany)

^d UNIVERSITY OF APPLIED SCIENCES   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CONCENTRATION LEVELS; CONCEPT LATTICES; CONCEPTUAL FRAMEWORKS; CONCEPTUAL SEMANTIC SYSTEMS; CONCEPTUAL TIME SYSTEM WITH ACTUAL OBJECTS AND A TIME RELATION; CYTOKINE STIMULATION; DISEASE PROCESS; EXPERT KNOWLEDGE; FORMAL CONCEPT ANALYSIS; GENE EXPRESSION DATA; GENE TRANSCRIPTIONS; INFLAMMATORY DISEASE; MATHEMATICAL DEFINITIONS; MATHEMATICAL THEORY; MESSENGER RNAS (MRNA); MOLECULAR REGULATION; OSTEO-ARTHRITIS; RHEUMATOID ARTHRITIS; SPACE AND TIME; SYNOVIAL CELLS; TEMPORAL CONCEPT ANALYSIS; TRANSITION DIAGRAM;

DATA PROCESSING; DATA REDUCTION; DISEASE CONTROL; GENES; INFORMATION ANALYSIS; RNA; SEMANTICS; TIME SERIES;

TRANSCRIPTION;

EID: 79960782970     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-22140-8_6     Document Type: Conference Paper

References (27)

1. Alberts, B., et al.: Molecular Biology of the Cell, with CD-ROM, 5th rev. edn. Taylor & Francis, London (2008)
2. Alsalameh, S., et al.: Preferential induction of prodestructive matrix metalloproteinase-1 and proinflammatory interleukin 6 and prostaglandin E2 in rheumatoid arthritis synovial fibroblasts via tumor necrosis factor receptor-55. J. Rheumatol. 30(8), 1680-1690 (2003)
3. Barwise, J.: The Situation in Logic. CSLI, Lecture Notes 17, Stanford (1989)
4. Barwise, J., Perry, J.: Situations and Attitudes. MIT Press, Cambridge (1983);
5. Deutsch: Situationen und Einstellungen: Grundlagen der Situationssemantik. De Gruyter, Berlin (1987)
6. Becker, P., Hereth Correia, J.: The ToscanaJ Suite for Implementing Conceptual Information Systems. In: Ganter, B., Stumme, G., Wille, R. (eds.) FCA 2005. LNCS (LNAI), vol. 3626, pp. 324-348. Springer, Heidelberg (2005)
7. Birkhoff, G.: Lattice Theory, 3rd edn. Amer. Math. Soc., Providence (1967)
8. Cunnane, G., Fitzgerald, O., Beeton, C., Cawston, T.E., Bresnihan, B.: Early joint erosions and serum levels of matrix metalloproteinase 1, matrix metalloproteinase 3, and tissue inhibitor of metalloproteinases 1 in rheumatoid arthritis. Arthritis. Rheum. 44(10), 2263-2274 (2001)
9. Dasu, M.R., Barrow, R.E., Spies, M., Herndon, D.N.: Matrix metalloproteinase expression in cytokine stimulated human dermal fibroblasts. Burns 29(3), 527-531 (2003)
10. Ganter, B., Wille, R.: Conceptual Scaling. In: Roberts, F.S. (ed.) Applications of Combinatorics and Graph Theory to the Biological and Social Sciences, pp. 139-167. Springer, Heidelberg (1989)
11. Ganter, B., Wille, R.: Formal Concept Analysis: Mathematical Foundations. Springer, Heidelberg (1999); German version: Springer, Heidelberg (1996)
12. Kauffman, S.A.: Metabolic stability and epigenesis in randomly constructed genetic nets. J. Theor. Biol. 22(3), 437-467 (1969)
13. Motameny, S., Versmold, B., Schmutzler, R.: Formal Concept Analysis for the Identification of Combinatorial Biomarkers in Breast Cancer. In: Medina, R., Obiedkov, S.A. (eds.) ICFCA 2008. LNCS (LNAI), vol. 4933, pp. 229-240. Springer, Heidelberg (2008)
14. Smolen, J.S., Stein, G.: Therapeutic Strategies for Rheumatoid Arthritis. Nature Reviews 2, 472-488 (2003)
15. Schütte, J., et al.: Jun-B inhibits and c-Fos stimulates the transforming and transactivating activities of c-Jun. Cell 59(6), 987-997 (1989)
16. Quan, T., He, T., Voorhees, J.J., Fisher, G.J.: Ultraviolet irradiation induces Smad7 via induction of transcription factor AP-1 in human skin fibroblasts. J. Biol. Chem. 280(9), 8079-8085 (2005)
17. Ward, J.H.: Hierarchical grouping to optimize an objective function. J. Amer. Stat. Assoc. 58, 236-244 (1963)
18. White, L.A., Mitchell, T.I., Brinckerhoff, C.E.: Transforming growth factor beta inhibitory element in the rabbit matrix metalloproteinase-1 (collagenase-1) gene functions as a repressor of constitutive transcription. Biochim. Biophys. Acta. 1490(3), 259-268 (2000)
19. Wille, R.: Restructuring lattice theory: an approach based on hierarchies of concepts. In: Rival, I. (ed.) Ordered sets, pp. 445-470. Reidel, Dordrecht (1982)
20. Wolff, K.E.: Temporal Concept Analysis. In: Mephu Nguifo, E., et al. (eds.) ICCS International Workshop on Concept Lattices-Based Theory, Methods and Tools for Knowledge Discovery in Databases, pp. 91-107. Stanford University, Palo Alto (2002)
21. Wolff, K.E.: Transitions in Conceptual Time Systems. International Journal of Computing Anticipatory Systems CHAOS 11, 398-412 (2002)
22. Wolff, K.E.: Interpretation of Automata in Temporal Concept Analysis. In: Priss, U., Corbett, D.R., Angelova, G. (eds.) ICCS 2002. LNCS (LNAI), vol. 2393, pp. 341-353. Springer, Heidelberg (2002)
23. Wolff, K.E.: 'Particles' and 'Waves' as Understood by Temporal Concept Analysis. In: Wolff, K.E., Pfeiffer, H.D., Delugach, H.S. (eds.) ICCS 2004. LNCS (LNAI), vol. 3127, pp. 126-141. Springer, Heidelberg (2004)
24. Wolff, K.E.: Turing Machine Representation in Temporal Concept Analysis. In: Ganter, B., Godin, R. (eds.) ICFCA 2005. LNCS (LNAI), vol. 3403, pp. 360-374. Springer, Heidelberg (2005)
25. Wolff, K.E.: States, Transitions, and Life Tracks in Temporal Concept Analysis. In: Ganter, B., Stumme, G., Wille, R. (eds.) Formal Concept Analysis - Foundations and Applications. LNCS (LNAI), vol. 3626, pp. 127-148. Springer, Heidelberg (2005)
26. Wolff, K.E.: States of Distributed Objects in Conceptual Semantic Systems. In: Dau, F., Mugnier, M.-L., Stumme, G. (eds.) ICCS 2005. LNCS (LNAI), vol. 3596, pp. 250-266. Springer, Heidelberg (2005)
27. Wollbold, J., Huber, R., Pohlers, D., Koczan, D., Guthke, R., Kinne, R., Gausmann, U.: Adapted Boolean network models for extracellular matrix formation. BMC Systems Biology 3, 77 (2009)