Dear list, I am using a 2-colour cDNA whole genome array for Anopheles gambiae (mosquito). The .gal file only has ensembl gene and transcript IDs for each spot; in addition since the chip was made, a number of the genes on it have been removed from ensembl as they were incorrectly identified or thought to be bacterial contaminants. The providers of the chip are currently updating the annotation; in the meantime, however, I would like to know: How can I used the current ensembl gene list for An. gambiae to: (a) filter out (remove) those genes from the limma toptables that are no longer in the database, and; (b) link gene ontology information to all the genes on the array that are still listed in the current version of the ensembl database. Appologies if this is a relatively straightforward thing to do - I have not tried using annotate or GO before and also not sure what package would be appropriate to use? Looking forward to any suggestions, Regards, Amy ------------------------------------------- Amy Mikhail Research student University of Aberdeen Zoology Building Tillydrone Avenue Aberdeen AB24 2TZ Scotland Email: a.mikhail at abdn.ac.uk Phone: 00-44-1224-272880 (lab)