EMBO Workshop on Principles of Self-Organization in Living Matter, European Molecular Biology Laboratory, Heidelberg, Germany, June 2-4, 2006

1. Evolutionary self-organization in molecular networks Lars Juhl Jensen EMBL Heidelberg

2. huh?

3. what is self-organization?

5. patterns emerge

6. no blueprint

7. a simple example

8. an EMBO meeting

10. fill it with scientists

11. no seating plan

12. yet patterns emerge

14. always the same pattern

15. but the details vary greatly

16. social networks

18. network dynamics

19. same at the cellular level

20. protein networks

22. evolutionary timescale

23. self-organization

24. global topology

25. degree distribution

27. scale-free networks

29. hierarchical networks

31. local topology

32. network motifs

34. always the same pattern

35. but the details vary greatly

36. cell cycle

37. S. cerevisiae

39. synchronized cell culture

40. microarray time series

42. periodically expressed genes

44. protein interactions

46. temporal network

48. dynamic and static

49. de Lichtenberg et al., Science, 2005

50. just-in-time assembly

52. not self-organization

53. evolved via self-organization

54. cross-species comparison

55. S. cerevisiae

56. S. pombe

57. H. sapiens

58. A. thaliana

59. microarray time series

61. periodically expressed genes

63. orthology assignment

65. regulation is not conserved

66. individual genes

67. look at a different scale

68. protein complexes

70. always the same pattern

71. but the details vary greatly

72. multi-level regulation

73. co-evolution

74. transcriptional regulation

75. posttranslational regulation

77. always the same pattern

78. but the details vary greatly

79. Acknowledgments Ulrik de Lichtenberg Thomas Skøt Jensen Søren Brunak Peer Bork