Similar to the data extraction of the AMC database, a researcher examined all medical records of 2007 containing the string 'chlam' or a related ICPC code to determine chlamydia episodes.
The end date will be the latest date of data extraction from the database.
This design was chosen as the most practicable, because it allowed us to work within the maximum extraction capabilities of the databases without losing any of the available cases and therefore not compromising either the power of the study or the generalisability of the findings.
Semantic web mining can be defined as the problem of automatic extraction of information from the database and produce a structured output to the user queries.
The processing of the results as well as the extraction of data from the database are made by using Python and R. BIOWINE relies on Python scripts for enrichment and on R scripts for generating heatmaps (pheatmap library) and volcano plots (ggplot2 library).
To facilitate screening and extraction of profiles from the database, a Look-Up tool was developed (Additional file 11).
Both interfaces have in common the provision of an additional notes field and the automatic extraction of the information (from database) about associated experiments.
After extraction of the Trinotate annotation report from the database (http://trinotate.sourceforge.net/#OutputReport), Arabidopsis annotations were added using an in-house Perl script.
Similarly, the data upload and extraction layer also facilitates the extraction of building information from the database and writing to BIM files in open standard.
First, we evaluate the extraction of database models in "Modelling" section.
Domains and motifs were identified through the following three steps: (1) BLAST search of each IVV sequence against the human RefSeq protein database; (2) extraction of the RefSeq protein fragment corresponding to the hit region; and (3) searching for the domains and motifs in each protein fragment.
