システムズバイオロジⅠ (130038) Systems Biology I (130038)
 
◇ 担当教員 Instructor : 金谷 重彦(Shigehiko Kanaya / かなや しげひこ)、 MD. ALTAF-UL-AMIN
◇ 単位数 Credits : 1単位 ◇ 選択・必修 Required/Elective : 選択 ◇ 講義室 Room : L2
◇ 講義スタイル Style : 講義/公開
◇ 開講時期 Quarter : Ⅰ期 火曜1限

◇ 授業目的 Course goals : Introducing the basic concepts of Systems biology in the context of graph theory and algorithms and making familiar with some software tools related to systems biology.
◇ 授業内容 Course description : [1]Introduction to Graphs/Networks, Different network models, Properties of Protein-Protein Interaction Networks, Different centrality measures of nodes, Protein Function prediction using network concepts, Application of network concepts in DNA sequencing, Line graphs.
[2]Concept and types of metric, Hierarchical Clustering, Finding clusters in undirected simple graphs: application to protein complex detection.
[3]Introduction to KNApSAcK database, Metabolic Reaction system as ordinary differential equations, Metabolic Reaction system as stochastic process.
[4]Metabolic network and stoichiometric matrix, Information contained in stoichiometric matrix, Elementary flux modes and extreme pathways.
[5]Graph spectral analysis/Graph spectral clustering and its application to metabolic networks.
[6]Normalization procedures for gene expression data, Tests for differential expression of genes, Multiple testing and FDR, Reverse Engineering of genetic networks.
[7]Finding Biclusters in Bipartite Graphs, Properties of transcriptional/gene regulatory networks, Introduction to software package Expander.
[8]Introduction to signaling pathways, Selected biological processes: Glycolytic oscillations, sustained oscillation in signaling cascades.

◇ 教科書 Textbook : 特に指定しない
◇ 参考書 Reference materials : 特に指定しない
◇ 履修条件 Prerequisites : 特になし。
◇ 成績評価 Grading : レポートと試験(50%)、出席(50%)の内容により成績を評価する。
◇ オフィスアワー Office Hours : 在室しているときは原則的にいつでも可(B511:Md.Altuf-Ul-Amin)
◇ 配布資料 Handouts : 現在、配布資料はありません。