Thirteen additional clinical strains for which clumping factor A (clfA), clumping factor B (clfB), and fibronectin binding protein A (fnbA) repeat region sequences are available on the NCBI nucleotide database were also utilized in this study (Table S1) [13].
Microarray data utilized in this study are stored in the ArrayExpress database (http://www.ebi.ac.uk/arrayexpress/) with accession number E-MEXP-3201 E-MEXP-3201 E-MEXP-3201
Data utilized in this study were drawn from a large national managed care database (Thomson Reuters MarketScan® Commercial Claims and Encounters Database; Thomson Reuters, New York City, NY, USA) for 2007 2009.
With the PATSER program (ftp://www.genetics.wustl.edu/pub/stormo/Consensus/ [39], which searches for patterns in a database, and the sequences utilized in this work for the construction of the PWM, the following thresholds were defined: −0.5 SD for the −10 element, and −1 SD for the −35 element.
The BT cutoffs for outcome prediction utilized in this study were predetermined based on the internal BT measurement database compiled in previous studies.
Pharmacophore models were validated using various methods and utilized in database searching to identify potential hits.
The validated pharmacophore was utilized in database screening to identify potential hits.
Additionally, a free web-based search was conducted using the same search terms utilized in the systematic database search.
In spite of the relatively large array of validity terms in the CINAHL thesaurus, validity indexing is under-utilized in this database.
However, this is no different really than the set of assumptions that underpin the Standard InChI that is presently utilized in the majority of databases, with one specific caveat.
(80 ) We utilized this database as a source of overall exosome proteomic information with particular emphasis on nuclear proteins and those involved in transcription and transcriptional regulation.
