Creating the Honey Bee PeptideAtlas. Honey bee tissues of different ages, sexes, and disease states were analyzed by MS using the high accuracy LTQ-OrbitrapXL or LTQ-FT. To improve proteome depth, we used samples which were biological replicates (i.e. same experiment on more than one bee), technical replicates (i.e. one bee sample analyzed more than once by MS), and employed various fractionation techniques. The RAW files were put through the PeptideAtlas pipeline. The database used for searching the MS data contained sequences from various publicly available sources, as well as novel and corrected proteins derived from the proteogenomics effort reported in this article. Using BLAST2GO, GO terms were annotated to proteins where appropriate. This result of this work comprises the Honey Bee PeptideAtlas.
Chan et al. BMC Genomics 2011 12:290 doi:10.1186/1471-2164-12-290