The context-sensitive nature of transcriptome, metabolome and proteome data necessitates the capture of a richer set of metadata (data about the data) than is required for basic genetic sequence, where usually knowing the organism of origin will suffice. The use of paper citations as proxies for actual metadata hinders the reassessment of data sets, and obstructs non-standard searching (e.g. by the order that different liquid chromatography columns were coupled). The requirements of the various journals also differ, so important detail may be lacking in some cases, or presented in an esoteric fashion.
There is then a need for public repositories that contain information from whole proteomics experiments; making explicit both where samples came from, and how analyses of them were performed. It is therefore appropriate to attempt to define the minimum set of information about a proteomics experiment that would be required by such a repository.
Working drafts available from this site:
The MIAPE 'Parent Document' v5.1 (foundational principles and context)
MIAPE: GE v1.0 (Gel Electrophoresis – does not include image informatics)
MIAPE: MSI v0.7 (Mass Spec Informatics)
MIAPE: MS v2.1 (Mass Spectrometry)
MIAPE: GI v0.1 (Gel [image] Informatics – online wiki draft for comment)
MIAPE: CC v0.1 (Column Chromatography)
MIAPE: CE v0.4 (Capillary Electrophoresis)
MIAPE: SP v0.1 (Sample preparation and handling)
MIAPE: Root v0.1 (Sample description, project structure, list of other modules used)
MIAPE module drafting guidelines document (requires MS Office XP or 2000)
Chris Taylor, chris.taylor@ebi.ac.uk, August 9th, 2006.