Computational approaches to cell cycle analysis: Current research topics (those I am allowed to talk about)

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Lars Juhl Jensen

PhD Program in Computational Biology, Instituto Gulbenkian de Ciencia, Oeiras, Portugal, April 29-May 2, 2008

Tecnologia Saúde e medicina

Current research topics (those I am allowed to talk about) Lars Juhl Jensen EMBL Heidelberg

Mitotic cyclin (Clb2)-bound Cdc28 (Cdk1 homolog) directly phosphorylated Swe1 and this modification served as a priming step to promote subsequent Cdc5-dependent Swe1 hyperphosphorylation and degradation

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Computational approaches to cell cycle analysis: Current research topics (those I am allowed to talk about)

1. Current research topics (those I am allowed to talk about) Lars Juhl Jensen EMBL Heidelberg

2. literature mining

3. why?

5. too much to read

6. information retrieval

7. finding the papers

8. ad hoc retrieval

9. user-specified query

10. “ yeast AND cell cycle”

11. stemming

12. yeast / yeasts

13. dynamic query expansion

14. yeast / S. cerevisiae

15.

16.

17.

18.

19. Mitotic cyclin (Clb2)-bound Cdc28 (Cdk1 homolog) directly phosphorylated Swe1 and this modification served as a priming step to promote subsequent Cdc5-dependent Swe1 hyperphosphorylation and degradation

20. no tool will find it

21. entity recognition

22. identifying the substance(s)

23. Mitotic cyclin ( Clb2 )-bound Cdc28 (Cdk1 homolog) directly phosphorylated Swe1 and this modification served as a priming step to promote subsequent Cdc5 -dependent Swe1 hyperphosphorylation and degradation

24. good synonyms list

25. orthographic variation

26. CDC28

27. Cdc28p

28. disambiguation

29. hairy

30. SDS

31. APC

32. Cdc2

33.

34.

35. still too much to read

36. information extraction

37. formalizing the facts

38. co-mentioning

39.

40. statistical methods

41. NLP Natural Language Processing

42.

43. Mitotic cyclin ( Clb2 )-bound Cdc28 (Cdk1 homolog) directly phosphorylated Swe1 and this modification served as a priming step to promote subsequent Cdc5 -dependent Swe1 hyperphosphorylation and degradation

44.

45. no new discoveries

46. text mining

47. undiscovered links

48.

49. Raynaud’s syndrome

50. fish oil

51.

52. temporal trends

53.

54. buzzwords

55.