To save costs and to facilitate usage of database-dependent programs, we prepared snapshots of different biological databases and indexes, including the NCBI nucleotide and protein databases in the form of raw and formatted sequences; the raw human genome sequence, and precomputed indexes of it for Bowtie [ 17 ].
To facilitate the usage of the database by individual researcher, we have implemented several web based functionalities to the database, allowing querying, annotating and filtering.
Usage of department database, mammograms and case notes.
In addition, our study demonstrated that the increased usage of online database was proportional to that of Web portals.
The statistics on the OCDB data are reported together with a brief documentation on the usage of the database content.
Finally, the potential usage of the database and its pros and cons shall be discussed in the Discussion section.
The following examples are rather low-level usage of the database, but the user can have the full control of the query.
We demonstrated the usage of this database by identifying candidate fusion proteins from raw mass spectrometry data generated on human non-small cell lung cancer (NSCLC) subtype samples.
The query agent manages all the requests and runs them exclusively in background, so that high usage rates and complex requests do not interfere with the normal usage of the database interface.
In contrast to the usage of numerical database IDs, the naming convention thus immediately provides the user with information about the phylogenetic relation and possible functions of the protein.
Although the RDF platform is already widely used in many cheminformatics areas, we identify several deficiencies that make usage of RDF databases restrictive or non-user-friendly: 1. Special procedures are not supported.
