The databases searched for annotated proteases were TAIR (The Arabidopsis Information Resource) and TrEMBL (a Computer-annotated supplement to Swiss-Prot).
A working version of such a security system, though it will take three more years to develop, is the goal of the Advisor project (short for Annotated Digital Video for Intelligent Surveillance and Optimized Retrieval).
A working version of such a security system, though three years down the road, is the goal of the Advisor project (short for Annotated Digital Video for Intelligent Surveillance and Optimized Retrieval).
In this study, we used FA-based multiple reaction monitoring (MRM) approaches to screen for potential acyltransferases in the EUROpean Saccharomyces Cerevisiae ARchive for Functional analysis (EUROSCARF) library to characterize potential substrates for annotated acyltransferase genes.
Here we characterize MIRNA gene transitivity (antisense siRNAs mapping to miRNA hairpins) for Arabidopsis, C. elegans and rice and the topology (exon-intron signal-to-noise ratios) of strand-specific signals for annotated protein-coding genes.
For annotated traces, see File S2.
The same was done for annotated TEs.
Expression values for annotated genes were calculated as RPKM [ 137].
For annotated monopolar graphs, the situation is even simpler.
The mapped reads were then used to calculate read counts for annotated genes.
We evaluated functional similarities for annotated Dmel DPGs using the Resnik semantic measure [ 34].
