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To estimate the FLOPS required by a typical query of the previously-discussed nature, a sample query was implemented.
A typical query involves searching for and retrieving patient gene/probeset values in a study in order to perform data analysis.
For a typical query, the query key is first compared with a few prototype vectors to determine the expected category.
Since most child nodes do not overlap, only a few branches of the tree need to be explored for a typical query.
This can cause performance issues; for instance a typical query takes on average 35 minutes to resolve on a single machine (4 core 3GHz machine with 8GB of memory) for the entire cohort.
A typical query takes less than two seconds, thus allowing an interactive and explorative approach to the hunt for the candidate gene.
As can be seen, a typical query requires only a fraction of a second to complete.
A typical query example featuring visual cues at each processing step has been added to the interface to assist users.
The typical query for a kinase includes basic protein information, gene expression profile in 39 cancers, summary table of substrate proteins and network analysis between kinase and their substrates.
During these computations, which take a few minutes for a typical network query, the user is updated about the progress and may bookmark the unique web page for this run or leave an e-mail address to be notified upon completion.
"A typical, annoying query is the last-minute: 'Is anything fun going on tonight?'," according to the Times.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com