Protein-Protein Interactions, Networks and Pathways - Chagall

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Network motifs• Network motifs - Patterns of connectivity thatappear in high frequencies in certain types ofnetworks.• Network motifs constitute the building blocksof networks. Can optimizefunctionalities=evolutionary selection.• For example: Feed-Forward motifs arecommon in transcriptional networks, enablingthe cells to regulate transcriptional response.
Milo R., et al., Science, 298:824-827 (2002).Network motifs
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Page 7 and 8: Protein Interactions• A geometric
Page 9 and 10: Yeast-two-hybrid• Widely used for
Page 11 and 12: Graph TheoryVertex (node)CycleEdge-
Page 13 and 14: Yeast Protein Linkage Map Project
Page 15 and 16: Computational Challenges II:Data qu
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Page 43 and 44: Osprey
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Page 49 and 50: How to assess reliability?• Repea
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Page 59: Gene Fusion
Page 64 and 65: Domain-Domain Interactions• Many
Page 66 and 67: SH3 domain
Page 68 and 69: Learning the motifsRhoGAPPPI source
Page 70 and 71: Converting a motif to a profile
Page 73: Verified PredictionsBetel D. et al.

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