sphpp bioinformatics. 3 rd chr-16 workshop
DESCRIPTION
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 - PowerPoint PPT PresentationTRANSCRIPT
SpHPP Bioinformatics.3rd CHr-16 Workshop. Miraflores de la SierraDecember, 10th-11th 2012 Alberto Medina
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
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
Website (http://hpp-sp.com)
Website. Consortium introduction
Website.WG introduction
Website. BD page
Website CHPP
C-HPP Wiki
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
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.
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Data Analysis Pipeline. Shotgun
Data Analysis Pipeline. Shotgun
We are growing!
Main improvements
• Some bugs have been fixed
• Data Analysis could be directly done by end-users
• Sequest has been included.
• Protein Inference – Protein Grouping.
Data Analysis. Protein Grouping
Main improvements
• Some bugs have been fixed
• Data Analysis could be directly done by end-users
• Sequest has been included.
• Protein Inference – Protein Grouping.
• Mascot Server
• Curated experiments
Curated experiments
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Data Analysis. MRM
Data Analysis. MRM
Data Analysis. Proteotipic?
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Sharing Data
Sharing Data
Sharing Data
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
Public Data
Viewing Data
Viewing Data
Viewing Data
Viewing other “data”
Summary
1. Logistics2. Activities and meetings3. Data Analysis pipeline
1. Shotgun2. MRM
4. Sharing data5. Viewing data6. Conclusions
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).
Acknowledges • CIMA:• Victor Segura• Fernando Corrales
• UCM:• Vital Vialas
• IIBB/CSIC:• Óscar Gallardo
• Ibermática• Aitor Moreno
• UPV:• Gorka Prieto• Kerman Aloria.• Jesús M. Arizmendi.
• UV:• Manuel S. Pino• Javi Órtiz
• CNB/CSIC:• Salvador Martínez
de Bartolomé.• Juan Pablo Albar
Discussion
• Submission pipeline.
• Protein Inference. Resubmit the data.
• Sequence BDs.
• MRM queries.
• Logo and name.