Protein, Gene Networks recountrustion and systhetic networks

Jul 17, 2012

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. Partial differential equations : C DyDifferential equations and S-system : C Dy Boolean networks : D Dy Bayesian networks: D S Logic programs: D Dy Neural networks: C S Petri nets: D Dy Fuzzy cognitive maps: D S Weak or none (ad hoc): D S. Mathematical Models for Biological Networks. .

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Protein, Gene Networks recountrustion and systhetic networks

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1. Protein, Gene Networks(recountrustion and systhetic networks) Luonan Chen

Exploratory Gene Association Networks

Exploratory Gene Association Networks. October 2009 Jesse Paquette Helen Diller Family Comprehensive Cancer Center University of California, San Francisco. What EGAN is . Software that runs on a biologist’s computer Java 6 and Java WebStart Utilizes Cytoscape libraries for graph rendering

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Gene Expression Networks

Gene Expression Networks. Esra Erdin CS 790g Fall 2010. Introduction Project Description Methodology Conclusion References. Introduction. Plants have important role in the lives of organisms. Plant growth in the natural environment is affected by a number of factors.

435 views • 33 slides

Protein Interaction Networks

Protein Interaction Networks. Feb. 21, 2013. Aalt-Jan van Dijk Applied Bioinformatics, PRI, Wageningen UR & Mathematical and Statistical Methods, Biometris, Wageningen University aaltjan.vandijk@wur.nl. My research. Protein complex structures Protein-protein docking Correlated mutations

1.24k views • 96 slides

Gene Correlation Networks

Gene Correlation Networks. Jin Chen CSE891-001 Fall 2012. Gene expression. Gene expression is the process by which information from a gene is used in the synthesis of a functional gene product It is used by all known life.

583 views • 28 slides

Protein Networks

Protein Networks. Week 5. A simple example of protein dynamics: protein synthesis and degradation Using the law of mass action, we can write the rate equation. S = signal strength (e.g. concentration of mRNA) R = response magnitude (e.g. concentration of protein). Linear Response.

665 views • 47 slides

Protein Networks / Protein Complexes

Protein Networks / Protein Complexes. Protein networks could be defined in a number of ways - Co-regulated expression of genes/proteins Proteins participating in the same metabolic pathways Proteins sharing substrates Proteins that are co-localized

607 views • 45 slides

Gene Expression Networks

Gene Expression Networks. Esra Erdin CS 790g Fall 2010. Introduction Project Description Related Work Conclusion References. Introduction. Plants have important role in the lives of organisms. Plant growth in the natural environment is affected by a number of factors.

326 views • 23 slides

6. Gene Regulatory Networks

6. Gene Regulatory Networks. EECS 600: Systems Biology & Bioinformatics Instructor: Mehmet Koyuturk. Regulation of Gene Expression. Transcriptional Regulation of telomerase protein component gene hTERT. Genetic Regulation & Cellular Signaling. Organization of Genetic Regulation.

553 views • 25 slides

Pattern storage in gene-protein networks

Ronald Westra Department of Mathematics Maastricht University. Pattern storage in gene-protein networks. Items in this Presentation. 1. Problem formulation 2. Modeling of gene/proteins interactions 3. Information Processing in Gene-Protein Networks

657 views • 51 slides

Protein-Protein Interactions Networks

Protein-Protein Interactions Networks. “ A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae ” P.Utez et al, Nature 2000 “ Functional organisation of the yeast proteome by systematic analysis of protein complexes ” G. Gavin et al, Nature 2002

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Reverse engineering gene and protein regulatory networks using Graphical Models.

Reverse engineering gene and protein regulatory networks using Graphical Models. A comparative evaluation study. Marco Grzegorczyk Dirk Husmeier Adriano Werhli. Systems biology Learning signalling pathways and regulatory networks from postgenomic data. possibly completely unknown.

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Protein Networks / Protein Complexes

Protein Networks / Protein Complexes. Protein networks could be defined in a number of ways (1) Co-regulated expression of genes/proteins (2) Proteins participating in the same metabolic pathways (3) Proteins sharing substrates (4) Proteins that are co-localized

543 views • 35 slides

Gene Regulatory Networks

Gene Regulatory Networks. slides adapted from Shalev Itzkovitz’s talk given at IPAM UCLA on July 2005. Protein networks - optimized molecular computers. E. coli – a model organism. Single cell, 1 micron length. Contains only ~1000 protein types at any given moment. still :.

817 views • 50 slides

Protein networks

Protein networks. MATERIALS FLOW NETWORKS. Labrador (dog) pigmentation. Yellow and/or Red pigments. tyrosinase. Tyrosine. Dopaquinone. TRP-2. Brown pigment. TRP-1. Nodes = metabolites Edges = enzymatic conversion (materials flow network). Black pigment.

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Protein networks, moonlighting and fuzziness

Protein networks, moonlighting and fuzziness. Peter Tompa. Institute of Enzymology Hungarian Academy of Sciences Budapest, Hungary. Science of networks. social networks transportation networks intern et feeding networks neuron al networks intracel lular networks

776 views • 49 slides

Gene regulatory networks

Gene duplication models and reconstruction of gene regulatory network evolution from network structure Juris Viksna, David Gilbert Riga, IMCS, 10.02.2006. Gene regulatory networks. Yeast network:. [J.Rung,T.Schlitt,A.Brazma,K.Freivalds,J.Vilo Bioinformatics 18 S2 (ECCB), 202-210 ].

669 views • 46 slides

Protein Complexes, Networks, and Pathways

Protein Complexes, Networks, and Pathways. components of protein complexes. interactions between protein complexes. functional pathways. Accessory Proteins. Pol III Subunit. α. TopB. τ. RecQ. γ. δ. δ `. ε. Ssb. χ. ψ. DNA Polymerase III Core Enzyme and Clamp Loader Complexes.

545 views • 31 slides

Modelling of Protein Networks

Modelling of Protein Networks. Workshop Computational Life Sciences 2005 Innsbruck – 2005-10-14 Marc Breit , M.Sc. Institute for Biomedical Engineering UMIT - Hall in Tyrol - Austria. Healthcare & Life Sciences. Early diagnosis of diseases. Drugs without side effects. Improved

352 views • 24 slides

Modeling Protein Structures and Gene Regulatory Networks by Mining Protein and RNA-Seq Data

Modeling Protein Structures and Gene Regulatory Networks by Mining Protein and RNA-Seq Data. Jianlin Jack Cheng, PhD Computer Science Department University of Missouri, Columbia March 7, 2012. Two Challenges. Protein Structure Modeling Gene Regulatory Network Modeling. The Genomic Era.

796 views • 56 slides

Reconstructing Gene Networks

Reconstructing Gene Networks. Presented by Andrew Darling Based on article “Research Towards Reconstruction of Gene Networks from Expression Data by Supervised Learning” - Soinov, Krestyaninova, Brazma. Outline. Why study another microarray algorithm? Background info Methods Results

297 views • 17 slides

Gene Networks Inference

Metabolic space. Metabolite 1. Metabolite 2. Protein space. Protein 2. Complex 3-4. Protein 4. Protein 1. Protein 3. Gene 4. Gene 2. Gene 3. Gene 1. Gene space. Gene Networks Inference. Biochemical interaction network. Projection to the gene space. Gene 4. Gene 2.

738 views • 55 slides

Gene Regulatory Networks

577 views • 50 slides

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