1. Copyright OpenHelix. No use or reproduction without express written consent1

2. ASTD: The Alternative Splicing and Transcript Diversity Database A comprehensive resource for alternative splice events and transcripts. Materials prepared by: Jennifer Williams, Ph.D. www.openhelix.com Updated: Q3 2010 Version 1.0

3. Copyright OpenHelix. No use or reproduction without express written consent3 ASTD Agenda ASTD database: http://www.ebi.ac.uk/astd/ Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises

4. ASTD Introduction Copyright OpenHelix. No use or reproduction without express written consent4 http://www.ebi.ac.uk/astd Alternative splicing, genome-wide Human, mouse and rat ASTD combines ATD and ASD into one source Both manually curated and computer generated data Updated regularly

5. ASTD Credits Copyright OpenHelix. No use or reproduction without express written consent5 ASTD is maintained by EBI and members of the Eurasnet Network of Excellence The ASTD project at EBI is supported by a grant from the EC: Eurasnet Network of Excellence (LSHG-CT-2005- 518238). Contact http://www.ebi.ac.uk/astd

6. ASTD Publications Copyright OpenHelix. No use or reproduction without express written consent6 http://nar.oxfordjournals.org/cgi/reprint/34/suppl_1/D46 http://www.biomedcentral.com/content/pdf/1471-2105-7-169.pdf

7. ASTD Online Help Copyright OpenHelix. No use or reproduction without express written consent7 Click

8. Many Search Options & Tools Available Copyright OpenHelix. No use or reproduction without express written consent8 http://www.ebi.ac.uk/astd

9. Copyright OpenHelix. No use or reproduction without express written consent9 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

10. Basic Searches Copyright OpenHelix. No use or reproduction without express written consent10 Select Click http://www.ebi.ac.uk/astd

11. Basic Search Results Page Copyright OpenHelix. No use or reproduction without express written consent11 Click any link to change species Click

12. Overview of Gene Report Page for E2f3 Copyright OpenHelix. No use or reproduction without express written consent12 Gene Information Genomic Region Promoter Region Polyadenylation MicroRNA Targets Splicing Events Transcripts Transcription Start cDNA Libraries Expression Data The Gene Report contains many sections with lots of information

13. Gene Report Page: General Gene Information Copyright OpenHelix. No use or reproduction without express written consent13

14. Gene Report Page: Genomic Region Copyright OpenHelix. No use or reproduction without express written consent14 Key at bottom of page More info here to explore

15. Gene Report Page: Transcripts & Promoter Region-1 Copyright OpenHelix. No use or reproduction without express written consent15

16. Gene Report Page: Transcripts & Promoter Region-2 Copyright OpenHelix. No use or reproduction without express written consent16

17. Gene Report Page: Transcription Start Sites Copyright OpenHelix. No use or reproduction without express written consent17

18. Gene Report Page: miRNA Targets & cDNA Libraries Copyright OpenHelix. No use or reproduction without express written consent18

19. Gene Report Page: Expression Map & Splicing Copyright OpenHelix. No use or reproduction without express written consent19

20. Copyright OpenHelix. No use or reproduction without express written consent20 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

21. Beginning an Advanced Search Copyright OpenHelix. No use or reproduction without express written consent21 http://www.ebi.ac.uk/astd Click

22. Advanced Search Options Copyright OpenHelix. No use or reproduction without express written consent22 chromosome all click helicase activity

23. Adding Terms to Advanced Searches Copyright OpenHelix. No use or reproduction without express written consent23 Click Show Hierarchy Add anatomy, life stage, or pathology terms to your search

24. Submitting an Advanced Search Copyright OpenHelix. No use or reproduction without express written consent24 Click helicase activity blood

25. Advanced Search Results Copyright OpenHelix. No use or reproduction without express written consent25

26. Copyright OpenHelix. No use or reproduction without express written consent26 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

27. Alternative Splicing Workbench Copyright OpenHelix. No use or reproduction without express written consent27 http://www.ebi.ac.uk/astd Click

28. Intron Analysis Copyright OpenHelix. No use or reproduction without express written consent28 Select Click

29. Intron Analysis Results Copyright OpenHelix. No use or reproduction without express written consent29 Donor/Acceptor Site Scores Branch Point Analysis Polypyrimidine Analysis

30. Exon Finder Copyright OpenHelix. No use or reproduction without express written consent30 Click

31. Exon Finder Results Copyright OpenHelix. No use or reproduction without express written consent31

32. ORF and ATG Context Scoring Copyright OpenHelix. No use or reproduction without express written consent32 Click

33. ORF and ATG Context Scoring Results Copyright OpenHelix. No use or reproduction without express written consent33

34. Splicing Rainbow Copyright OpenHelix. No use or reproduction without express written consent34 Click

35. Splicing Rainbow Results Copyright OpenHelix. No use or reproduction without express written consent35 Splicing Factors

36. Regulatory Sequences Copyright OpenHelix. No use or reproduction without express written consent36 Click

37. Regulatory Sequences Results Copyright OpenHelix. No use or reproduction without express written consent37

38. Splice Sequence Search Copyright OpenHelix. No use or reproduction without express written consent38

39. Copyright OpenHelix. No use or reproduction without express written consent39 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

40. Alternative Exon Database Copyright OpenHelix. No use or reproduction without express written consent40 Click http://www.ebi.ac.uk/astd

41. AEdb Sequence Database Query Copyright OpenHelix. No use or reproduction without express written consent41 Organisms Keyword Splice events Methods Tissues Development Regulation Gene symbol Disease Click

42. AEdb Sequence Database Results Copyright OpenHelix. No use or reproduction without express written consent42

43. AEdb Function Database Copyright OpenHelix. No use or reproduction without express written consent43

44. AEdb Function Database Query Copyright OpenHelix. No use or reproduction without express written consent44 Organisms Keyword Gene symbol Specific roles Click

45. AEdb Function Database Results Copyright OpenHelix. No use or reproduction without express written consent45

46. Minigenes Copyright OpenHelix. No use or reproduction without express written consent46

47. Minigene Tables Copyright OpenHelix. No use or reproduction without express written consent47

48. Diseases Copyright OpenHelix. No use or reproduction without express written consent48

49. Tables of Diseases & Splicing Associations Copyright OpenHelix. No use or reproduction without express written consent49

50. Copyright OpenHelix. No use or reproduction without express written consent50 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

51. Splicing Statistics Pages Copyright OpenHelix. No use or reproduction without express written consent51 http://www.ebi.ac.uk/astd

52. Human Splicing Statistics Copyright OpenHelix. No use or reproduction without express written consent52 Genes mRNAs Features Junctions Events Anatomy Development Pathology

53. Copyright OpenHelix. No use or reproduction without express written consent53 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

54. Summary Copyright OpenHelix. No use or reproduction without express written consent54 http://www.ebi.ac.uk/astd or Advanced Searches Basic Searches Expression Data Gene Data

55. Data & Tools Copyright OpenHelix. No use or reproduction without express written consent55 Alternative Exon Database tools Splicing Statistics Alternative Splicing Workbench tools Many many powerful analyses at your fingertips!

56. Copyright OpenHelix. No use or reproduction without express written consent56 ASTD Agenda Introduction & Credits Basic Searches & Results Advanced Searches Alternative Splicing Workbench Alternative Exon Database Splicing Statistics Pages Summary Exercises ASTD database: http://www.ebi.ac.uk/astd/

57. Copyright OpenHelix. No use or reproduction without express written consent57