Mathematical and computational analysis of intracelluar dynamics
Mathematical and computational analysis of intracelluar dynamics 2
... 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., 20 02; Yamaguchi et al., 20 01; Mayo and ... kidney 14 (29 3T and HEK293), human primary keratinocytes cells, mouse fibroblasts (NIH3T3 and MEF) (Gottlieb et al., 20 02; Mayo et al., 20 02; Mayo and Donner, 20 01; Ashcroft et al., 20 02; Ogawara...
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Mathematical and computational analysis of intracelluar dynamics 3
... 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 53] n2 v5 = v6 = j5n + [ p 53] n2 k [ ... conserved (Figure 3- 7) p53ss AKT*ss [p53ss] [AKTass ] [AKTT ] Figure 3- 7 Model M3: steady-state bifurcation diagrams of p 53 and AKTa The steady state values of p 53 ([p53ss], gray curve) and AKTa ([AKTass],...
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Mathematical and computational analysis of intracelluar dynamics 4
... 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 radiation (IR) ... following: periods of oscillation are to hrs; peaks of MDM2 oscillations lag behind p53 peak for 1.5 to 2.5 hrs; periods of oscillations decrease with increasing IR intensity; and peaks of p53 pulses...
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Mathematical and computational analysis of intracelluar dynamics 5
... (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 and digital p53 oscillations Time-courses of analog (blue) and ... interval of 0.02 µM For each combination of k0 and j5, a p53 steady-state curve as a function of ρ is computed; k0,basal is set as 0.1 µM/min and j5 is set as 0 .5 µM in the computation of the p53 steady...
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Mathematical and computational analysis of intracelluar dynamics 6
... 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 65 67 69 71 73 75 ... (Pramono et al., 19 96; Matsuo, 19 96; Matsuo and Takeshima, 2005; Wilton and Fletcher, 2005a, 2005b; Wilton et al., 2007; AartsmaRus et al., 2002, 2004, 2005, 20 06; van Deutekom and van Ommen, 2003;...
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Mathematical and computational analysis of intracelluar dynamics 7
... 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 80% of target sites of (–) ... 5th-percentile of L3 scores of (++) AON target sites (Appendix A-18) On the other hand, target sites of h45AON5 and h46AON4 graded as (+) and target sites of h51AON29, h55AON5 and h77AON2 graded...
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Mathematical and computational analysis of intracelluar dynamics 8
... 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, bistability between apoptotic and ... exhibit oscillatory dynamics under certain conditions The role of these oscillations of intracellular p53 protein levels upon DNA damage in cell survival and death in the context of the p53-AKT network...
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Mathematical and computational analysis of intracelluar dynamics 9
... 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 3) and OA1 gene in ocular ... algorithm, the accuracy of the model is limited by the accuracy of such algorithms However, the use of vast numbers of predicted secondary structures that averaged 44,582 of them per exon (Appendix...
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Mathematical and computational analysis of intracelluar dynamics
... 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 efficiency of 94% of previously ... physiologies and make novel predictions by analyzing intracellular dynamics based on the known interactions among intracellular components using mathematical and computational models Examples of intracellular...
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Báo cáo khóa học: Mutational and computational analysis of the role of conserved residues in the active site of a family 18 chitinase docx
... 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 comparative study of available structures of family 18 chitinases ... bond ˚ and Asp140 is 10.7 A Mutational effects The residues mutated in this study are shown in Fig Asp140, Asp142, Glu144 and Asp215 were mutated individually to asparagine and alanine, Tyr10 and...
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Báo cáo khoa học: "A Linguistic and Computational Analysis of the German "Third Construction"*" potx
... 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 pushed on the top of the designated ... popped Then, the remaining noun and verb are simply read and popped If we use any of the metrics proposed in [Joshi 1990] (such as the sum of the number of moves that input elements are stored in the...
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Báo cáo sinh học: "Review of "Reconstructing Evolution: New mathematical and computational advances" edited by Olivier Gascuel and Mike Steel" potx
... 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 overview of which types of networks ... that of evolutionary trees constructed from real biological data and, thereby, to better understand the processes that lead to the patterns found in those trees Chapter 6, by K Hartmann and M...
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Musculoskeletal biomechanical computational analysis of sitting posture and seat design
... 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 VARIOUS SEAT DESIGN ... MUSCULOSKELETAL BIOMECHANICAL COMPUTATIONAL ANALYSIS OF SITTING POSTURE AND SEAT DESIGN HUANG MENGJIE (B.Eng., SICHUAN UNIVERSITY) A THESIS SUBMITTED FOR THE DEGREE OF DOCTOR OF PHILOSOPHY...
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Probabilistic verification and analysis of biopathway dynamics
... 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 problem of probabilistic ... share of ups and downs, and they have all added to make the journey very memorable and enjoyable In the process I have had a chance to meet, interact and work with a number of people who have and...
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Từ khóa: Nghiên cứu tổ chức chạy tàu hàng cố định theo thời gian trên đường sắt việt namGiáo án Sinh học 11 bài 13: Thực hành phát hiện diệp lục và carôtenôitĐỒ ÁN NGHIÊN CỨU CÔNG NGHỆ KẾT NỐI VÔ TUYẾN CỰ LY XA, CÔNG SUẤT THẤP LPWANQuản lý hoạt động học tập của học sinh theo hướng phát triển kỹ năng học tập hợp tác tại các trường phổ thông dân tộc bán trú huyện ba chẽ, tỉnh quảng ninhPhát triển mạng lưới kinh doanh nước sạch tại công ty TNHH một thành viên kinh doanh nước sạch quảng ninhPhát triển du lịch bền vững trên cơ sở bảo vệ môi trường tự nhiên vịnh hạ longNghiên cứu, xây dựng phần mềm smartscan và ứng dụng trong bảo vệ mạng máy tính chuyên dùngNghiên cứu tổng hợp các oxit hỗn hợp kích thƣớc nanomet ce 0 75 zr0 25o2 , ce 0 5 zr0 5o2 và khảo sát hoạt tính quang xúc tác của chúngNghiên cứu khả năng đo năng lượng điện bằng hệ thu thập dữ liệu 16 kênh DEWE 5000Tìm hiểu công cụ đánh giá hệ thống đảm bảo an toàn hệ thống thông tinSở hữu ruộng đất và kinh tế nông nghiệp châu ôn (lạng sơn) nửa đầu thế kỷ XIXKiểm sát việc giải quyết tố giác, tin báo về tội phạm và kiến nghị khởi tố theo pháp luật tố tụng hình sự Việt Nam từ thực tiễn tỉnh Bình Định (Luận văn thạc sĩ)chuong 1 tong quan quan tri rui roGiáo án Sinh học 11 bài 14: Thực hành phát hiện hô hấp ở thực vậtGiáo án Sinh học 11 bài 14: Thực hành phát hiện hô hấp ở thực vậtGiáo án Sinh học 11 bài 14: Thực hành phát hiện hô hấp ở thực vậtTrách nhiệm của người sử dụng lao động đối với lao động nữ theo pháp luật lao động Việt Nam từ thực tiễn các khu công nghiệp tại thành phố Hồ Chí Minh (Luận văn thạc sĩ)BÀI HOÀN CHỈNH TỔNG QUAN VỀ MẠNG XÃ HỘIChiến lược marketing tại ngân hàng Agribank chi nhánh Sài Gòn từ 2013-2015HIỆU QUẢ CỦA MÔ HÌNH XỬ LÝ BÙN HOẠT TÍNH BẰNG KIỀM