Hi Micha, Micha Bayer wrote: > Hi Dominic, > > We are trying to export our first experiment for real so we can submit > it to ArrayExpress, and initially it looked like everything had worked > okay. But now we have found an error with the annotation that I wanted > to ask you about.
> Our experiment is a two-colour one, and we have a factor which can take > the value of mutant or wildtype. Both mutant and wildtype sample is > applied to the hybridization (one per channel) and we then want the > RawBioAssay item to inherit its annotations. The only way we could find > to do that was to inherit from both the samples, but then only one of > them is exported into the tab2mage file, which presumably is not good > enough for ArrayExpress. This is becuase BASE chooses the first of the inherited annotations values that it finds for sample, assigns and displays this as the factor value for the experiment. And the tab2mage exporter exports this assigned value during export. I will post this response on the mailing list so that Nicklas and others can pick it up. I reckon we should list the inherited values for two channel raw bioassay on the experiment page (at the raw bio assay section. And then we can find a mechanism to export that. I think array express will accept the exported file as it is. Although there will be a loss of information. I.e. instead of having mutant and wildtype as factor value on each Hyb channel row of the tab2mage file, you will only have either one that Base has assigned as factor value. ¬Dominic ------------------------------------------------------------------------- This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now >> http://get.splunk.com/ _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
