For example, 83 LEAP entries contain the annotation "seed maturation protein".
(We already know it can do very strange poetry (PDF).) "We believe that the models that have worked so well in speech recognition, translation and image annotation will seed an exciting new crop of tools for art and music creation," wrote Eck.
Specifically, we preferentially assigned metabolic annotation to seven genes based on the information available at an organism-specific annotation effort for M. acetivorans [ 36], 51 genes based on SEED annotations [ 37] and 107 genes based on TIGR annotations.
For the SEED annotations, similarities percentages breakdown, SIMPER [47] was used to determine which functional categories and SEED subsystems contributed most to differences between groups of samples (grouped by day/night and season).
Using published gene family annotations as a seed for BLAST, I searched seven Drosophila taxa and the mosquitoes An. gambiae and Ae. aegypti for genes of the CPR [13], Tweedle [14], CPF/CPFL [15], [16], and CPLCG [7] families.
To allow direct comparison all samples were randomly re-sampled (Daisychopper.pl) to the same number of pORFs or sequences across the clusters or functional/taxonomic SEED annotations, to equalize the sequencing effort.
Firstly, all data were transformed by square root; then a separate Bray-Curtis similarity matrix was calculated for the protein clusters and SEED annotations for both the metagenomes and metatranscriptomes.
Using the proportion of DNA and mRNA sequences that had homology to known proteins, we were able to make phylum-level taxonomic assignments using annotations from the SEED databases [18] (Fig. 2).
The KEGG draft network was augmented using independent annotations from The SEED and from BioCyc.
