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This paper proposes a database analysis method aimed at the process of building a new ontology.
FDRs were also calculated via the traditional reverse database analysis method and yielded similar FDRs, 11% and 6.8% for 30 and 90-day samples respectively.
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The GSCC database and analysis method has been developed to serve as a resource for those scientists interested in studying the regulatory role of local codons and as a launching pad for studies on the regulation of translation elongation.
PCAS, ProteinCentric Annotation System, includes most of the motif or domain databases and analysis methods mentioned above.
The total number of unigenes that produced hits and the number of different motifs identified varied highly depending on the database size and the analysis method.
A larger database and refined analysis methods are anticipated to further improve prediction accuracy.
A number of statistical methods and database analysis tools were used to compare the data sets and perform a detailed pathway analysis.
Our further work includes collecting geochemical data of marine sediments from the scientific literature to establish a database, analysis and use of appropriate interpolation methods to gain information for ocean regions with sparse sediment data available, as well as the estimation and comparison of carbon stocks of more maritime nations.
The EST database analysis requires the development of novel methods and software for data processing.
We applied most available motif or domain databases and their analysis methods, including hmmpfam search of HMMs in Pfam, SMART and TIGRFAM, RPS-PSIBLAST search of PSSMs in CDD, pfscan of PROSITE patterns and profiles, as well as PSI-BLAST search of SUPERFAMILY PSSMs.
Gene Ontology (GO) database analysis and pathway analysis were performed using the standard enrichment computation method.
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