Sentence examples for a database size from inspiring English sources

The RP15 (threshold 15%), RP35, RP55 and RP75 sets yield a database size reduction of 53, 45, 37 and 30%, respectively, with respect to the source sequence set (of complete proteomes).

The options used were hmmbuild and hmmsearch, with an E-value threshold of 0.01 and a database size of 20,000 (average of all the sequences from all the genomes).

We also used a 6-frame trandlation and proteolytic digestion of the whole human genome for our proteogenomic mapping (UCSC hg19, 2009, available at http://hgdownload.cse.ucsc.edu/goldenPath/hg19/chromosomes/), resulting in a database size of ~3.2 GB.

a Data from these genomes was used in the phylogenetic profiling studies that identified EpsH. a Data was normalized to results from the Comprehensive Microbial Resource which showed 256 hits from a database size of 1048 MB of DNA.

For the sake of uniformity, we introduce a database size dependent effective variable x db, which is simply the E-value for search methods reporting E-values and is a monotonically decreasing function of quality score, e-(Quality score), for search methods that do not return E-values; see Table 2. Scaling of the database size and functional transformation to yield calibrated E-values.

Is there a database size restriction?

The calibration is done in two steps: first transform a database-size-dependent variable xdb (e.g. e- X-correlation) for Se- X-correlationue- X-correlationinto a standard one, x1gr, which is calibrated for databaSEQUEST of 1 gigandesidues; second, a forctional transformation f(X1gr) Tandemld the correct E-value ginto the equivalent variable x1gr.

E-value is an estimate of the number of "hits" due to chance for a given database size rather than an error measure of individual pair-wise alignments as is of interest here.

The one-tailed Fisher test calculates the probability P(X ≥ x) of finding purely by chance at least x out of K genes associated with a category comprising M genes given a total database size of N genes (1).

A background database size of 175, 000 corresponds to a maximum active set size of 860 actives: more than large enough to effectively evaluate methods in our largest data set, suth-dhfr with 722 chemicals.

A cut-off of E < 1 × 10-20 and a fixed database size of 9 × 109 (which was the approximate size off EMBL at the time the work was started) was used.