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SpHPP Bioinformatics. 3 rd CHr-16 Workshop.

SpHPP Bioinformatics. 3 rd CHr-16 Workshop. . Miraflores de la Sierra December, 10 th -11 th 2012 Alberto Medina. Summary. Logistics Activities and meetings Data Analysis pipeline Shotgun MRM Sharing data Viewing data Conclusions. Summary. Logistics Activities and meetings

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SpHPP Bioinformatics. 3 rd CHr-16 Workshop.

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  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.

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