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This mock submission demonstrated the use of a contextual database containing genomics data annotated with toxicity data for the interpretation of the potential toxicity of an SSRI.
Information about maximum loan-to-value ratios (in percentages) was taken from SHARE's contextual database (cross-checked against OECD-data and Schwartz and Seabrooke 2008).
The opportunity for the NPSC to access and be trained on the database provided an in-depth understanding of the use of a contextual database to generate gene expression signatures.
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The NPSC anticipates increased use of contextual databases as a resource for the generation of gene expression signatures or motifs that could eventually become validated biomarkers of toxicity.
Expression data for three to six animals per time point per treatment group dosed for 1, 3, and 5 days were analyzed and compared with a contextual reference database of microarray data for approximately 600 compounds.
ProfMiner algorithm operates on a database containing contextual preference rules.
We've amassed the broadest, most detailed database of contextual information relevant to a home (neighborhood, schools, weather, amenities) and all we needed was the property information.
Finally, interpretation of the differences in specific settlements, countries and regions is somewhat limited by lack of contextual information in the database to explain these differences.
Moreover, 3 proteins found by psi-square (COG1699, COG2257, COG3034, figure in additional data file 3) may have previously unreported connections to flagellar phenotype, based on contextual information from STRING database (Table 1 in additional data file 3).
The reduction of the signal is proportional with the reduction of the contextual information content of the database (di- and trinucleotide shuffled databases, mosaic shuffled datasets).
For example, mapping tools were implemented into BRISK to access contextual information from external databases, such as the Kyoto Encyclopedia of Genes and Genomes (KEGG) [ 38].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com