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Protein Interactions in (and) Disease Maricel Kann (NIH), Yanay Ofran (Columbia), Marco Punta (Columbia), and Predrag R

Protein Interactions in (and) Disease Maricel Kann (NIH), Yanay Ofran (Columbia), Marco Punta (Columbia), and Predrag Radivojac (Indiana). Protein Interactions. Protein and diseases. LINKING INTERACTIONS TO DISEASE Analyzing interactions. Protein Interactions. Protein and diseases.

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Protein Interactions in (and) Disease Maricel Kann (NIH), Yanay Ofran (Columbia), Marco Punta (Columbia), and Predrag R

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  1. Protein Interactions in (and) Disease Maricel Kann (NIH), Yanay Ofran (Columbia), Marco Punta (Columbia), and Predrag Radivojac (Indiana)

  2. Protein Interactions Protein and diseases LINKING INTERACTIONS TO DISEASE Analyzing interactions

  3. Protein Interactions Protein and diseases LINKING INTERACTIONS TO DISEASE Analyzing interactions

  4. Protein Interactions Protein and diseases LINKING INTERACTIONS TO DISEASE Analyzing interactions

  5. Detecting protein-protein interactions High-throughput Two-hybrid systems Fields FEBS (2005) 262:5391-5399 - Review Mass SpectrometryMann et al. (2001) Rev Biochem. 70:437-473 -Review MicroarraysESPEJO et al. (2002) Biochem. J. 367 (697–702) Single protein Molecular biology

  6. Expanding protein-protein interaction DATAbases Sequence similarity Structural similarity De NOVO

  7. From: A Protein Interaction Map of Drosophila melanogaster Giot,Rothberg et al. Science 302, 1727-1136 (2003) interaction map

  8. Expanding protein-protein interaction DATAbases Sequence similarity Structural similarity De NOVO Struct2Net: Integrating Structure into Protein-Protein Interaction Prediction Rohit Singh, Jinbo Xu, and Bonnie Berger

  9. Linking protein-protein interactions to disease Online Mendelian Inheritance in Man (OMIM) McKusick-Nathans Institute for Genetic Medicine, Johns Hopkins University (Baltimore, MD) and National Center for Biotechnology Information, National Library of Medicine (Bethesda, MD), 2000. World Wide Web URL: http://www.ncbi.nlm.nih.gov/omim/ Protein-Disease Database (PDD) Maintained by NCI PharmGKB Thorn, Klein and Altman (2005) Methods Mol Biol., 311:179-91.

  10. From: Towards a proteome-scale map of the human protein–protein interaction network Rual, Vidal et al. Nature 437, 1173-1178 (2005)

  11. From: Towards a proteome-scale map of the human protein–protein interaction network Rual, Vidal et al. Nature 437, 1173-1178 (2005) Mining Alzheimer Disease Relevant Proteins from Integrated Protein Interactome Data Jake Yue Chen, Changyu Shen, and Andrey Y. Sivachenko Discovering Regulated Networks During HIV-1 Latency and Reactivation Sourav Bandyopadhyay, Ryan Kelley, and Trey Ideker Struct2Net: Integrating Structure into Protein-Protein Interaction Prediction Rohit Singh, Jinbo Xu, and Bonnie Berger

  12. Predicting and analyzing Protein interaction regions Modeling and Analyzing Three-Dimensional Structures of Human Disease Proteins Yuzhen Ye, Zhanwen Li, and Adam Godzik Identifying Interaction Sites in "Recalcitrant" Proteins: Predicted Protein and RNA Binding Sites in Rev Proteins of HIV-1 and EIAV Agree with Experimental Data Michael Terribilini, Jae-Hyung Lee, Changhui Yan, Robert L. Jernigan, Susan Carpenter, Vasant Honavar, and Drena Dobbs Accounting for Structural Properties and Nucleotide Co-variations in the Quantitative Prediction of Binding Affinities of Protein-DNA Interactions Sumedha Gunewardena and Zhaolei Zhang Improving Computational Predictions of Cis- Regulatory Binding Sites Mark Robinson, Yi Sun, Rene Te Boekhorst, Paul Kaye, Rod Adams, Neil Davey, and Alistair G. Rust

  13. What is next? Modeling biological processes Modeling and Simulation with Hybrid Functional Petri Nets of the Role of Interleukin-6 in Human Early Haematopoiesis Sylvie Troncale, Fariza Tahi, David Campard, Jean-Pierre Vannier, and Janine Guespin

  14. Protein Interactions in Disease 8:50-9:10         Modeling and Analyzing Three-Dimensional Structures of Human Disease Proteins Yuzhen Ye, Zhanwen Li, and Adam Godzik 9:10-9:30         Mining Alzheimer Disease Relevant Proteins from Integrated Protein Interactome DataYue Chen, Shen, and Sivachenko 9:30-9:50         Modeling and Simulation with Hybrid Functional Petri Nets of the Role of Interleukin-6 in Human Early Haematopoies Troncale, Tahi, Campard, Vannier, and Guespin 9:50-10:10       Identifying Interaction Sites in “Recalcitrant” Proteins: Predicted Protein and RNA Binding Sites in Rev Proteins of HIV and EIAV Agree with Experimental Data Terribilini, Lee, Yan, Jernigan, Carpenter, Honavar, and Dobbs 10:10-10:30     Struct2Net: Integrating Structure into Protein-Protein Interaction Prediction Singh, Xu, and Berger 10:30-10:50     Discovering Regulated Networks During HIV-1 Latency and Reactivation Bandyopadhyay, Kelley, and Ideker 10:50-11:30    Coffee Break 11:30-1:00       Discussion Session: Protein Interactions in Disease

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