'Network motifs' diaporamas de présentation

Complex networks are found throughout biology

Complex networks are found throughout biology. Can we define the basic building blocks of networks?. Generalize the notion of MOTIFS, widely used in sequence analysis, to the level of networks. Sequence motif: a sequence that appears much more frequently than in randomized sequences.

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Complex networks are found throughout biology

Complex networks are found throughout biology. Can we define the basic building blocks of networks?. Generalize the notion of MOTIFS, widely used in sequence analysis, to the level of networks. Sequence motif: a sequence that appears much more frequently than in randomized sequences.

974 views • 97 slides

Network motifs: discovery and applications

Network motifs: discovery and applications. Guy Zinman Seminar in Bioinformatics Technion, Spring 2005. Outline. Theory of network motifs Definition, Algorithm Application to E. Coli transcription network The dynamic behavior of the motifs Finding active subnetworks Simulated annealing

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A Quantitative Overview to Gene Expression Profiling in Animal Genetics

A Quantitative Overview to Gene Expression Profiling in Animal Genetics. Gene Networks. Reversed Engineering (data-driven) of Gene (Regulatory) Networks from Expression Data. Armidale Animal Breeding Summer Course, UNE, Feb. 2006.

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Detecting Network Motifs in Gene Co-expression Networks

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BIOLOGICAL REGULATION NETWORKS

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Network Motifs: Simple Building Blocks of Complex Network

Network Motifs: Simple Building Blocks of Complex Network. Lecturer: Jian Li. Introduction. Recently, it was found that biochemical and neuronal network share a similar property: they contain recurring circuit elements which occur more often far more than that in randomized networks.

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Fri, Nov 8, 2013

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Lecturer: Trey Ideker

Network Clustering Experimental network mapping Graph theory and terminology Scale-free architecture Integrating with gene essentiality Robustness. Lecturer: Trey Ideker. Measurements of molecular interactions. Protein-protein interactions Yeast-two-hybrid Kinase-substrate assays

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Lecturer: Trey Ideker

Network Clustering Experimental network mapping Graph theory and terminology Scale-free architecture Integrating with gene essentiality Robustness. Lecturer: Trey Ideker. Measurements of molecular interactions. Protein-protein interactions Yeast-two-hybrid Kinase-substrate assays

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GENERAL NETWORK PATTERNS

GENERAL NETWORK PATTERNS Danail Bonchev Center for the Study of Biological Complexity Virginia Commonwealth University Singapore, July 9-17, 2007 All Complex Dynamic Networks Have Similar Structure and Common Properties Hubs Scale-Freeness Small-Worldness Centrality

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Network topology and evolution of hard to gain and hard to loose attributes

Network topology and evolution of hard to gain and hard to loose attributes. Teresa Przytycka NIH / NLM / NCBI. Modeling network evolution. Propose a model. Generate a network using the model. NO Wrong model!. Does the measure agree ?. Choose a measure of network topology.

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Reading: Barabasi and Oltvai 2004, Milo et al. 2002

Clustering of protein networks: Graph theory and terminology Scale-free architecture Modularity Robustness. Lecturer: Trey Ideker. Reading: Barabasi and Oltvai 2004, Milo et al. 2002. Yeast protein-protein interaction network. What are its network properties?. Graphs.

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Network Motifs in Prebiotic Metabolic Networks

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25 OCTOBER 2002 VOL 298 SCIENCE

25 OCTOBER 2002 VOL 298 SCIENCE. Two types of motifs heavily over-represented in transcriptional networks:. Simple expression. Negative auto-regulation. Positive auto-regulation. Simple expression. Negative auto-regulation. Positive auto-regulation. b. a. c.

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Preprocess expression data and select genes

Gene Ontology. Time-Course Gene Expression. Binding Site Sequences. Genome-Wide Location Analysis. Preprocess expression data and select genes. Encode binding site sequences. Determine network motifs for TFs. Preprocess data. Cluster genes using FCM and GO information.

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