Complex Systems Analysis of Cell Cycling Models in Carcinogenesis:II. Cell Genome and Interactome, Neoplastic Non-random Transformation Models in Topoi with Lukasiewicz-Logic and MV Algebras

Quantitative Biology, abstract q-bio.OT/0406045 From: I.C. Baianu Dr. [view email] Date (v1): Thu, 24 Jun 2004 02:45:13 GMT (164kb) Date (revised v2): Fri, 2 Jul 2004 00:58:06 GMT (160kb) Complex Systems Analysis of Cell Cycling Models in Carcinogenesis: II. Authors: I.C. Baianu Comments: 23 pages, 1 Figure Report-no: CC04 Subj-class: Other Carcinogenesis is a complex process that involves dynamically inter-connected modular sub-networks that evolve under the influence of micro-environmentally induced perturbations, in non-random, pseudo-Markov chain processes. An appropriate n-stage model of carcinogenesis involves therefore n-valued Logic treatments of nonlinear dynamic transformations of complex functional genomes and cell interactomes. Lukasiewicz Algebraic Logic models of genetic networks and signaling pathways in cells are formulated in terms of nonlinear dynamic systems with n-state components that allow for the generalization of previous, Boolean or "fuzzy", logic models of genetic activities in vivo. Such models are then applied to cell transformations during carcinogenesis based on very extensive genomic transcription and translation data from the CGAP databases supported by NCI. Such models are represented in a Lukasiewicz-Topos with an n-valued Lukasiewicz Algebraic Logics subobject classifier description that represents non-random and nonlinear network activities as well as their transformations in carcinogeness. Specific models for different types of cancer are then derived from representations of the dynamic state-space of LT non-random, pseudo-Markov chain process, network models in terms of cDNA and proteomic, high throughput analyses by ultra-sensitive techniques. This novel theoretical analysis is based on extensive CGAP genomic data for human tumors, as well as recently published studies of cyclin signaling. Several such specific models suggest novel clinical trials and rational therapies of cancer through re-establishment of cell cycling inhibition in stage III cancers.