Mathematical and computational analysis of intracelluar dynamics

... skin and brain cortex (Feng et al., 20 07; Wang et al., 20 05; Stambolic et al., 20 01; Trotman and Pandolfi, 20 03; Singh et al., 20 02; Tang and Eng, 20 06a, 20 06b) AKT phosphorylation of MDM2 (AKT-MDM2) ... (CI41) and mouse hippocampal 12 neurons (Gottlieb et al., 20 02; Su et al., 20 03; Wang et al., 20 05; Ogawara et al., 20 02; Zhou et al., 20 01; Singh et al.,...

Ngày tải lên: 11/09/2015, 16:05

... Sections 3. 3 and 3. 4 Finally, novel systemic behaviors of the system are inferred and predicted from the simulation results (Sections 3. 5 and 3. 6) 34 3. 2 Formulation of kinetic models Figure 3- 1 Kinetic ... p 53] n1 k [ p 53] v3 = j3n1 + [ p 53] n1 v4 = k [PIP 2] k {[PIPT ] − [PIP3]} = j + [PIP 2] j + [PIPT ] − [PIP3] vm = k m [PTEN ][PIP 3] j m + [PIP3] (3- 3) k [ p 5...

Ngày tải lên: 11/09/2015, 16:05

... damped oscillations of p53 and MDM2 protein levels in cell populations of mouse fibroblasts and human breast cancer epithelial MCF-7 cells, following 5Gy of IR The dynamics of the p53-MDM2 oscillator ... populations of human wild-type and Bloom’s syndrome patients’ fibroblast, following induction of DNA damage either by 20 J/m2 of UV radiation or 2.5 Gy of ionizing rad...

Ngày tải lên: 11/09/2015, 16:05

... (uM) 1 .5 1. 75 0.2 0. 25 0 .5 0. 75 0 .5 1. 25 [AKTT] (uM) 0. 75 1 .5 1. 75 1 .5 1. 75 120 350 D C 110 300 100 90 250 80 200 0. 25 0 .5 0. 75 1. 25 [AKTT] (uM) 1 .5 1. 75 70 0. 25 1. 25 [AKTT] (uM) Figure 5- 24 Oscillation ... Analog and digital forms of p53 oscillations Digital [TP53] 5. 7.2 [p53] uM Analog Tim e Figure 5- 20 Schematic illustration of analog an...

Ngày tải lên: 11/09/2015, 16:05

... 53 55 57 59 61 63 65 67 69 71 73 75 77 79 Figure 6- 1B Percentage length of each exonic region relative to its flanking intronic region To illustrate the fact that the exonic region of the dystrophin ... in Figure 6- 1 121 1,000,000 N u m b e r o f b a s e p a irs 100,000 10,000 1,000 100 10 1 11 13 15 17 19 21 23 25 27 29 31 33 35 37 39 41 Exon 43 45 47 49 51 53 55 57 59 61 63...

Ngày tải lên: 11/09/2015, 16:05

... 0 .7 0 .7 0 .7 0.6 0.6 0.6 0.5 0.5 0.5 0.4 0.4 0.4 0.3 0.3 0.3 0.2 0.2 0.2 0.1 0.1 0 90 92 94 96 98 100 102 104 106 108 0.1 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 19 20 21 22 23 24 25 26 27 ... only 17% of target sites of (+) AONs had one or more clusters, they were manifested in 52% of target sites of (++) AONs Set B also exhibited similar trends: 71 %, 70 % and...

Ngày tải lên: 11/09/2015, 16:05

... systematically in place of current trial -and- error means, which could reduce the cost and waiting time of therapy In conclusion, the use of models has greatly aided in the understanding of the two intracellular ... dynamics between the two steady states of the system leads to the understanding of how cells regulate the switch between cell survival and death Interestingly,...

Ngày tải lên: 11/09/2015, 16:05

... specific and other known or unknown details of the regulation of p53 and AKT In particular, different forms of p53 are ignored to reduce the number of variables and unknown mechanistic and kinetic ... genetic diseases Examples of such 163 genes are beta-globin gene in thalassemia (Suwanmanee et al., 2002; Gorman et al., 2000; Sazani and Kole, 2003; Dominski and Kole, 199...

Ngày tải lên: 11/09/2015, 16:05

... system A system- level understanding of the biological process and elucidating of the systems behaviors can then be obtained from the insights of such analyses The dynamics of two intracellular processes ... not a standalone process Analyses show that dynamics of co-transcriptional binding accessibilities of AON target sites could statistically correlate with efficacy and...

Ngày tải lên: 11/09/2015, 16:05

... residues are not described well and there is no example of mutational analysis of all of these residues in the same enzyme To obtain an insight into how the many conserved residues in the active sites ... circulans, whereas it may be mutated to asparagine without loss of activity in other family 18 chitinases [28,30] Preliminary results of a compara...

Ngày tải lên: 07/03/2014, 14:20

... terms of a closely related automaton, the Bottom-up EPDA (BEPDA) ~ The BEPDA consists of a finite-state control and of a stack of stacks There are two types of moves: either an input is read and ... new stack on top of the stack of stacks, or a fixed number of stacks below and above a designated stack on the stack of stacks is removed and a new symbol is push...

Ngày tải lên: 23/03/2014, 20:20

... Chapters and are devoted to problems arising in the context of the reconstruction of Trees from Subtrees and Characters In Chapter 7, by M J Sanderson et al., the problem of fragmentation of the ... motivated by the fact that the evolutionary history of some sets of taxa is better represented by a network rather than a tree Chapter 9, by D Huson, first gives a short ov...

Ngày tải lên: 12/08/2014, 17:20

... study of sitting Therefore, the aim of this research is to investigate the biomechanics and ergonomics of sitting posture and seat design through the approach of musculoskeletal computational analysis ... 39 3.7 Analysis of Flexion and Extension Postures 44 3.8 Analysis of Sitting Postures 46 3.9 Summary 53 CHAPTER INVESTIGATION OF THE INFLUENCE OF...

Ngày tải lên: 10/09/2015, 09:23

... PROBABILISTIC VERIFICATION AND ANALYSIS OF BIOPATHWAY DYNAMICS SUCHEENDRA KUMAR PALANIAPPAN (B.Eng, PESIT, India) A THESIS SUBMITTED FOR THE DEGREE OF DOCTOR OF PHILOSOPHY IN ... natural and succinct model to work with Consequently, our work concerns the analysis of DBN models of biopathways from a model checking point of view Specifically, we first consider the prob...

Ngày tải lên: 10/09/2015, 09:25