Programmatic access of Proteomics Resources
This course consists of a mix of lectures and practical experience in accessing proteomics resources. An overview of each of the databases will introduce participants to the types of data, the way the data are stored and the connection between databases. Subsequently database-specific lectures will address the programmatic accessibility of the data and data integration between resources. This new knowledge will then be applied in hands-on tutorials.
Topics include
Topics centre around programmatically accessing several resources, including:
- Introduction to Proteomics Databases at the EBI
- Relationships among Proteomic Databases at the EBI
- Refreshing Web Services in Java
- Programmatic access of the following resources:
- Integrating data across: BioMart and EnCORE (Enfin)
| Time | Topic |
|---|---|
| Day1-Monday 28th | |
| 12:45 - 13:00 | Welcoming |
| 13:00 -13:20 | General Introduction To Proteomics (Lennart Martens) |
| 13:20 - 13:45 | UniProt Intro (Samuel Patient) |
| 13:45 - 14:00 | InterPro Intro ( James Watson) |
| 14:00 – 14:15 | Reactome Intro (David Croft) |
| 14:15 – 15:00 | Pride Intro (Phil Jones) |
| 15:00 – 15:15 | IntAct Intro (Samuel Kerrien) |
| 15:15 – 15:30 | Tea break |
| 15:30 – 15:45 | Relationships amongst the databases (Hamish McWilliam) |
| 15:45 – 17:30 | Open discussion on data (all trainers) |
| Day 2-Tuesday 29th | |
| 09:30 - 11:00 | Refreshing Webservices (Hamish McWilliam) |
| 11:00 – 11:15 | Coffee break |
| 11:15 - 13:00 | UniProt Hands-On (Samuel Patient) |
| 13:00 - 14:00 | Lunch |
| 14:00 – 15:15 | UniProt Hands-On continues |
| 15:15 – 15:30 | Tea break |
| 15:15 – 17:30 | InterPro Hands-On (Hamish McWilliam) |
| Day 3-Wednesday 30th | |
| 9:30 - 11:30 | Reactome Hands-On (David Croft) |
| 11:30 - 11:45 | Coffee break |
| 11:45 – 13:00 | IntAct Hands-On (Samuel Kerrien) |
| 13:00 - 14:00 | Lunch |
| 14:00- 15:30 | IntAct Hands-On continues |
| 15:30 -15:45 | Tea break |
| 15:45 – 17:30 | Pride and BioMart Hands-On (Phil Jones) |
| Day 4-Thursday 31st | |
| 09:30 - 11:00 | PicR/OLS Hands-On (Richard Cote) |
| 11:00 – 11:15 | Coffee break |
| 10:45 – 13:00 | Encore Hands-On (Florian Reisinger) |
| 13:00 - 14:00 | Lunch |
| 14:00 - 15:00 | Optional Hands-On Session and extension exercises (all trainers) |
This course is especially intended for bioinformaticians with literacy in java and some prior experience (or basic understanding) with Web Services.
The training is free, however we need to charge participants an administration fee of £25 per day. Administration fee for this course is £75.
Registration Closed.
Course materials can be found at the following link:
/training/sites/ebi.ac.uk.training/files/materials/2008/course_080721_computational_proteom.zip