SpHPP Bioinformatics. 3 rd CHr-16 Workshop.

1. SpHPP Bioinformatics.3rd CHr-16 Workshop. Miraflores de la Sierra December, 10th-11th 2012 Alberto Medina

2. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

3. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

4. Logistics • Logistics: • FTP. Public FTP for exchanging “regular” files. A new system should be developed for high throughput instruments. • Mailing list. Different lists grouping by working groups • Wiki space: http://community.uv.es/mediawiki/ • Web site: http://hpp-sp.com • Google code site: https://code.google.com/p/s-chpp/ Webex teleconference

5. Website(http://hpp-sp.com)

6. Website. Consortiumintroduction

7. Website.WG introduction

8. Website. BD page

9. Website CHPP

10. C-HPP Wiki

11. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

12. Activities and metings 9/3rd: Follow-up teleconference. 9/19th: Follow-up teleconference. 10/3rd: Follow-up teleconference. 10/17th: Follow-up teleconference. 10/31st: Follow-up teleconference. 11/21st: Follow-up teleconference.

13. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

14. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

15. Data Analysis Pipeline. Shotgun

16. Data Analysis Pipeline. Shotgun

17. We are growing!

18. Mainimprovements • Somebugshavebeenfixed • Data Analysiscouldbedirectly done byend-users • Sequest has beenincluded. • ProteinInference – ProteinGrouping.

19. Data Analysis. ProteinGrouping

20. Mainimprovements • Somebugshavebeenfixed • Data Analysiscouldbedirectly done byend-users • Sequest has beenincluded. • ProteinInference – ProteinGrouping. • Mascot Server • Curatedexperiments

21. Curatedexperiments

22. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

23. Data Analysis. MRM

24. Data Analysis. MRM

25. Data Analysis. Proteotipic?

26. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

27. Sharing Data

28. Sharing Data

29. Sharing Data

30. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

31. Public Data

32. Viewing Data

33. Viewing Data

34. Viewing Data

35. Viewingother “data”

36. Summary • Logistics • Activities and meetings • Data Analysis pipeline • Shotgun • MRM • Sharing data • Viewing data • Conclusions

37. Conclusions • Website should be filled. WG description ASAP. • Continuous activities and meetings. • Data Analysis. • Shotgun analysis is great! • MRM DB • Data submission pipeline. Sequest is “active”. • Interaction with C-HPP and other chromosomes (TPB).

38. Acknowledges • CIMA: • Victor Segura • Fernando Corrales • UCM: • Vital Vialas • IIBB/CSIC: • Óscar Gallardo • Ibermática • Aitor Moreno • UPV: • GorkaPrieto • Kerman Aloria. • Jesús M. Arizmendi. • UV: • Manuel S. Pino • JaviÓrtiz • CNB/CSIC: • Salvador Martínez de Bartolomé. • Juan Pablo Albar

39. Discussion • Submission pipeline. • Protein Inference. Resubmit the data. • Sequence BDs. • MRM queries. • Logo and name.