To assess sequence variability and conservation across the viral proteome, all available clade B complete HIV-1 protein sequences in the Los Alamos National Laboratory (LANL) HIV Sequence Database were assessed for Shannon entropy at each amino acid position.
Only those anatomical treatment sites that had at least 100 patients in the database were assessed for this study.
The performance of de novo short-read assembly followed by automatic annotation using the pubMLST.org Neisseria database was assessed and evaluated for 108 diverse, representative, and well-characterised Neisseria meningitidis isolates.
A public database of human breast cancers was assessed for expression of Snail1 and Snail2 in relation to outcome.
Parity was assessed for female cases and controls based on information in the nationwide Fertility Database (Blenstrup and Knudsen 2011).
One important strength of the methods that are tested for the performance using test databases such as LIVE (image or video) is their higher applicability because the media present in such databases have been assessed for overall perceptual quality and not for a particular artifact.
The overwhelming fraction of proteins whose sequences have been collected in comprehensive databases may never be assessed for function experimentally.
Before calculating magnitude frequency relationships each source in the database, the record must be assessed for completeness (Simpson et al. 2011).
Two separate gene expression datasets lodged at the Gene Expression Omnibus, NCBI gene expression and hybridisation array data repository (http://www.ncbi.nlm.nih.gov/geo/), and on the Oncomine database (http://www.oncomine.org/), were assessed for SPRY1, SPRY2, SPRED1, and SPRED2 expression.
A total of six breast cancer expression databases, including The Cancer Genome Atlas, were assessed for RIP2 expression among various clinical subtypes and its role as a prognostic biomarker.
A total of 190 records were identified by the database and hand search and were assessed for eligibility.
