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Summary of the 3rd CHr-16 Bioinformatics Workshop - December 2012

The 3rd CHr-16 Bioinformatics Workshop held in Miraflores de la Sierra from December 10-11, 2012, focused on advancements in data analysis pipelines, including Shotgun and MRM methodologies. Key sessions included discussions on logistics, sharing and viewing data, and continuous improvement in data analysis processes. Updates included the integration of Sequest for protein inference and enhanced user access. Notable acknowledgments were given to contributors and organizations for their support and collaboration. The workshop emphasized the need for ongoing communication through teleconferences and a consolidated website for resources.

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Summary of the 3rd CHr-16 Bioinformatics Workshop - December 2012

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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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