A Practical Guide to Cancer Systems Biology
98 A Practical Guide to Cancer Systems Biology library(org.Hs.eg.db) x<-org.Hs.egPATH mappedIDToKEGG<- mappedLkeys(x) Gos ...
Pathway and Network Analysis 99 then subjected to the hypergeometric test on overrepresentation in KEGG pathways for those upr ...
100 A Practical Guide to Cancer Systems Biology up.4.fold <- samrSummTable$genes.up[,2][as.numeric(samrSummTable $genes.up[, ...
Pathway and Network Analysis 101 Figure 3. Gene correlation network for B cell leukemia with BCR−ABL rearrangement. Also, you ...
102 A Practical Guide to Cancer Systems Biology advanced approaches, you will get closer to a comprehensive picture about the co ...
9. Dynamic Modeling Yu-Chao Wang Institute of Biomedical Informatics, National Yang-Ming University, Taiwan
[email protected]
In ...
104 A Practical Guide to Cancer Systems Biology Mathematical fundamentals 2.1. Introduction to differential equations A differ ...
Dynamic Modeling 105 By transposition, Eq. (9.2) can be further expressed as m(t+Δt)=m(t)+f(m, t)Δt =g(m, t) (9.3) which becom ...
106 A Practical Guide to Cancer Systems Biology fold change selection are usually applied to gene expression profiles from the t ...
Dynamic Modeling 107 In the discrete dynamic model of gene regulation (9.4), the regulatory genes that potentially regulates t ...
108 A Practical Guide to Cancer Systems Biology l∈{ 1 , ...,L− 1 }. Hence, Eq. (9.5) can be written in the following matrix form ...
Dynamic Modeling 109 estimatesθˆiand ˆσi^2 must conform to the following two equations: ∂lnL(θi,σi^2 ) ∂θi ∣∣ ∣∣ θi=θˆi =0 (9. ...
110 A Practical Guide to Cancer Systems Biology fit with data fromLsamples, the AIC statistics can be written as follows6,8: AIC ...
Dynamic Modeling 111 between the components of biological systems. Although the analysis of transcriptomics data for construct ...
10. Protein Structure Modeling Chia-Hsien Lee and Hsueh-Fen Juan∗ Graduate Institute of Biomedical Electronics and Bioinformatic ...
114 A Practical Guide to Cancer Systems Biology on related technologies.^2 Fortunately, some researchers developed methods to de ...
Protein Structure Modeling 115 Figure 1. General step(s) used in homology modeling. First, one should obtain protein sequence ...
116 A Practical Guide to Cancer Systems Biology Figure 2. Screenshots of UniProt. (a) Welcome screen of UniProt. You can see the ...
Protein Structure Modeling 117 Homology modeling with SwissModel You may choose SwissModel, ModWeb, or I-tasser, or all of the ...
118 A Practical Guide to Cancer Systems Biology Figure 3. Using SwissModel for protein modeling. (a) In ‘sequence’ section of pr ...
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